Associated Tutorial

This workflows is part of the tutorial Filter, plot, and explore single cell RNA-seq data with Seurat, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Workflow Author(s): ...

This workflow is developed for automatic detection and measuring of mitoflashes in time-lapse microscopy images.

In addition, this workflow can be used for detection and tracking of other spot-like organelles with small motion.

If this workflow helped with the analysis of your data, please do not forget to cite: https://doi.org/10.1097/j.pain.0000000000002642

Associated Tutorial

This workflows is part of the tutorial [Tracking of mitochondria and capturing ...

Deep Learning image classifier model

Associated Tutorial

This workflows is part of the tutorial Train and Test a Deep learning image classifier with Galaxy-Ludwig, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

**Workflow ...

WF3- Peptide verification/validaiton workflow

Associated Tutorial

This workflows is part of the tutorial Clinical Metaproteomics 3: Verification, available in the GTN

Thanks to...

Workflow Author(s): Subina Mehta

Tutorial Author(s): Subina Mehta, ...

Interpreting MaxQuant data using MSstats involves applying a rigorous statistical framework to glean meaningful insights from quantitative proteomic datasets

Associated Tutorial

This workflows is part of the tutorial Clinical Metaproteomics 5: Data Interpretation, available in the GTN

Thanks to...

Workflow Author(s): ...

Generating a large database and then reducing it to a compact database using Metanovo

Associated Tutorial

This workflows is part of the tutorial Clinical Metaproteiomics 1: Database-Generation, available in the GTN

Thanks to...

Workflow Author(s): Subina Mehta

Tutorial Author(s): [Subina ...

Discovery workflow with SG/PS and MaxQuant to generate microbial peptides

Associated Tutorial

This workflows is part of the tutorial Clinical Metaproteomics 2: Discovery, available in the GTN

Thanks to...

Workflow Author(s): Subina Mehta

Tutorial Author(s): Subina Mehta, ...

Quantification using the MaxQuant tool

Associated Tutorial

This workflows is part of the tutorial Clinical Metaproteomics 4: Quantitation, available in the GTN

Thanks to...

Workflow Author(s): Subina Mehta

Tutorial Author(s): Subina Mehta, ...

This workflow predict in-silico mass spectra using semi-empirical quantum physics method.

Associated Tutorial

This workflows is part of the tutorial Predicting EI+ mass spectra with QCxMS, available in the GTN

Features

• Includes Galaxy Workflow Tests ...

Workflow for running LotuS2 tool on fungal ITS paired-end sequencing data, to identify the fungi present in the samples

Associated Tutorial

This workflows is part of the tutorial Identifying Mycorrhizal Fungi from ITS2 sequencing using LotuS2, available in the GTN

Features

• Includes [Galaxy Workflow ...

Associated Tutorial

This workflows is part of the tutorial GO Enrichment Analysis on Single-Cell RNA-Seq Data, available in the GTN

Features

• Includes Galaxy Workflow Tests
• Includes a Galaxy Workflow Report ...

Associated Tutorial

This workflows is part of the tutorial Ecoregionalization workflow tutorial, available in the GTN

Features

• Includes Galaxy Workflow Tests
• Uses Galaxy Workflow Comments ...

Associated Tutorial

This workflows is part of the tutorial Assembly of the mitochondrial genome from PacBio HiFi reads, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Workflow Author(s): VGP, Galaxy

**Tutorial ...

Associated Tutorial

This workflows is part of the tutorial Decontamination of a genome assembly, available in the GTN

Features

• Includes Galaxy Workflow Tests
• Includes a Galaxy Workflow Report ...

This workflow allows you to annotate a genome with Helixer and evaluate the quality of the annotation using BUSCO and Genome Annotation statistics. GFFRead is also used to predict protein sequences derived from this annotation, and BUSCO and OMArk are used to assess proteome quality.

Associated Tutorial

This workflows is part of the tutorial Genome annotation with Helixer, available ...

Secondary metabolite biosynthetic gene cluster (SMBGC) Annotation using Neural Networks Trained on Interpro Signatures

Associated Tutorial

This workflows is part of the tutorial Marine Omics identifying biosynthetic gene clusters, available in the GTN

Features

• Includes Galaxy Workflow Tests ...

Discovery workflow with SG/PS and MaxQuant to generate microbial peptides

Associated Tutorial

This workflows is part of the tutorial Clinical Metaproteomics 2: Discovery, available in the GTN

Thanks to...

Workflow Author(s): Subina Mehta

Tutorial Author(s): Subina Mehta, ...

Quantification using the MaxQuant tool

Associated Tutorial

This workflows is part of the tutorial Clinical Metaproteomics 4: Quantitation, available in the GTN

Thanks to...

Workflow Author(s): Subina Mehta

Tutorial Author(s): Subina Mehta, ...

Interpreting MaxQuant data using MSstats involves applying a rigorous statistical framework to glean meaningful insights from quantitative proteomic datasets

Associated Tutorial

This workflows is part of the tutorial Clinical Metaproteomics 5: Data Interpretation, available in the GTN

Thanks to...

Workflow Author(s): ...

WF3- Peptide verification/validaiton workflow

Associated Tutorial

This workflows is part of the tutorial Clinical Metaproteomics 3: Verification, available in the GTN

Thanks to...

Workflow Author(s): Subina Mehta

Tutorial Author(s): Subina Mehta, ...

Generating a large database and then reducing it to a compact database using Metanovo

Associated Tutorial

This workflows is part of the tutorial Clinical Metaproteiomics 1: Database-Generation, available in the GTN

Thanks to...

Workflow Author(s): Subina Mehta

Tutorial Author(s): [Subina ...

Calculating diversity from bracken output

Associated Tutorial

This workflows is part of the tutorial Calculating α and β diversity from microbiome taxonomic data, available in the GTN

Features

• Includes Galaxy Workflow Tests
• Includes a [Galaxy Workflow ...

Quality and contamination control in bacterial isolate using Illumina MiSeq Data

Associated Tutorial

This workflows is part of the tutorial Quality and contamination control in bacterial isolate using Illumina MiSeq Data, available in the GTN

Features

• Includes [Galaxy Workflow ...

Workflow of Tutorial "Single-cell ATAC-seq standard processing with SnapATAC2". This workflow takes a fragment file as input and performs the standard steps of scATAC-seq analysis: filtering, dimension reduction, embedding and visualization of marker genes with SnapATAC2. In an alternative step, the fragment file can also be generated from a BAM file.

Associated Tutorial

This workflows is part of the tutorial [Single-cell ATAC-seq standard processing with ...

metaquantome-data-creation

Associated Tutorial

This workflows is part of the tutorial metaQuantome 1: Data creation, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Subina ...

Visualisation with Circos

Associated Tutorial

This workflows is part of the tutorial Circos: Nature workflow, available in the GTN

Thanks to...

Tutorial Author(s): Saskia Hiltemann, Helena Rasche, ...

workflow-editor

Associated Tutorial

This workflows is part of the tutorial Tutorial workflow, available in the GTN

Thanks to...

Tutorial Author(s): Marius van den Beek

[![gtn star logo followed by the word ...

Visualization of RNA-Seq results with Volcano Plot

Associated Tutorial

This workflows is part of the tutorial Visualization Of RNA-Seq Results With Volcano Plot, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks

...

Submitting SARS-CoV-2 sequences to ENA

Associated Tutorial

This workflows is part of the tutorial GTN_ENA_upload_workflow, available in the GTN

Thanks to...

Tutorial Author(s): Miguel Roncoroni, [Bert ...

Small Non-coding RNA Clustering using BlockClust

Associated Tutorial

This workflows is part of the tutorial Blockclust 1.1.0 Clustering, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): ...

Analyse Bulk RNA-Seq data in preparation for downstream Pathways analysis with MINERVA

Associated Tutorial

This workflows is part of the tutorial mRNA-Seq BY-COVID Pipeline: Analysis, available in the GTN

Features

• Includes Galaxy Workflow Tests ...

Classification in Machine Learning

Associated Tutorial

This workflows is part of the tutorial Classification in Machine Learning, available in the GTN

Features

• Includes Galaxy Workflow Tests
• Includes a [Galaxy Workflow ...

Downloads data from NCBI assuming the correct data input format. (I.e. it should be two columns, with a header, Run and Group, where Run is an SRR identifier.)

Associated Tutorial

This workflows is part of the tutorial BY-COVID: Data Download, available in the GTN

Features

• Includes [Galaxy Workflow ...

Reference-based RNA-Seq data analysis

Associated Tutorial

This workflows is part of the tutorial Reference-based RNA-Seq data analysis, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Workflow Author(s): Bérénice Batut, ...

Regression in Machine Learning

Associated Tutorial

This workflows is part of the tutorial ml_regression, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Alireza ...

This portion of the workflow produces sets of feature Counts ready for analysis by limma/etc.

Associated Tutorial

This workflows is part of the tutorial mRNA-Seq BY-COVID Pipeline: Counts, available in the GTN

Features

• Includes Galaxy Workflow Tests ...

Reference-based RNA-Seq data analysis

Associated Tutorial

This workflows is part of the tutorial DEG Part - Ref Based RNA Seq - Transcriptomics - GTN, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): ...

Associated Tutorial

This workflows is part of the tutorial gpu_jupytool, available in the GTN

Thanks to...

Tutorial Author(s): Anup Kumar

...

Analyze differential isoform expression

Associated Tutorial

This workflows is part of the tutorial Genome-wide alternative splicing analysis, available in the GTN

Features

• Includes Galaxy Workflow Tests
• Includes a [Galaxy Workflow ...

Reference-based RNA-Seq data analysis

Associated Tutorial

This workflows is part of the tutorial Reference-based RNA-Seq data analysis, available in the GTN

Features

• Includes Galaxy Workflow Tests
• Uses ...

Image classification with fruit 360 dataset

Associated Tutorial

This workflows is part of the tutorial fruit_360, available in the GTN

Thanks to...

Tutorial Author(s): Kaivan Kamali

Workflow Author(s): Kaivan Kamali

[![gtn star logo followed by the word ...

RNA-seq counts to genes

Associated Tutorial

This workflows is part of the tutorial RNA Seq Counts To Genes, available in the GTN

Thanks to...

Tutorial Author(s): Maria Doyle, Belinda Phipson, ...

Basics of machine learning

Associated Tutorial

This workflows is part of the tutorial Machine Learning, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Anup ...

De novo transcriptome reconstruction with RNA-Seq

Associated Tutorial

This workflows is part of the tutorial De novo transcriptome reconstruction with RNA-Seq, available in the GTN

Thanks to...

Tutorial Author(s): Mallory Freeberg, [Mo ...

Identify upregulated miRNAS and analyze potential targets in downregulated genes.

Associated Tutorial

This workflows is part of the tutorial Plant bulk RNA-Seq workflow, available in the GTN

Thanks to...

Tutorial Author(s): Cristóbal Gallardo, ...

Interval-Wise Testing for omics data

Associated Tutorial

This workflows is part of the tutorial Workflow Constructed From History 'IWTomics Workflow', available in the GTN

Thanks to...

Tutorial Author(s): Marzia A Cremona, [Fabio ...

RNA-seq genes to pathways

Associated Tutorial

This workflows is part of the tutorial RNA Seq Genes To Pathways (imported from uploaded file), available in the GTN

Thanks to...

Tutorial Author(s): Maria Doyle, [Belinda ...

GO Enrichment Analysis Tutorial

Associated Tutorial

This workflows is part of the tutorial GO Enrichment Workflow, available in the GTN

Thanks to...

Tutorial Author(s): IGC Bioinformatics Unit, Maria Doyle ...

Starting from the BAM files produced by snippy, generate a table that summarizes the drug-resistance profile for each sample

Associated Tutorial

This workflows is part of the tutorial From BAMs to drug resistance prediction with TB-profiler, available in the GTN

Thanks to...

Tutorial Author(s): [Galo A. ...

Associated Tutorial

This workflows is part of the tutorial Intro_To_CNN_v1.0.11.0, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): Kaivan Kamali ...

Retrieve climate data from Copernicus

Associated Tutorial

This workflows is part of the tutorial Retrieve climate data from Copernicus, available in the GTN

Thanks to...

Tutorial Author(s): Bérénice Batut, [Helena ...

In this workflow the similarity among set of search queries (e.g. genes) is analyzed based on the associated vocabulary in PubMed. The last tool is an interactive tool that enables the inspection of the data.

Associated Tutorial

This workflows is part of the tutorial Simtext training workflow, available in the GTN

Thanks to...

**Tutorial ...

Visualization of RNA-Seq results with heatmap2

Associated Tutorial

This workflows is part of the tutorial Heatmap2 Workflow, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Maria ...

Given a set of VCF files and the reference genome used to do the mapping and SNP calling, create a multifasta file containing the genomes of all samples and calculate the matrix of pairwise SNP distances

Associated Tutorial

This workflows is part of the tutorial From VCFs to SNP distance matrix, available in the GTN

Thanks to...

**Tutorial ...

Creating a new tutorial

Associated Tutorial

This workflows is part of the tutorial MakeAFakeInput, available in the GTN

Thanks to...

Tutorial Author(s): Bérénice Batut, Helena Rasche, ...

Associated Tutorial

This workflows is part of the tutorial Intro_To_FNN_v1_0_10_0, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): Kaivan Kamali ...

roscoff hackathon

Associated Tutorial

This workflows is part of the tutorial trinity NG, available in the GTN

Thanks to...

Tutorial Author(s): Anthony Bretaudeau, Gildas Le Corguillé, ...

From Fastqs to VCFs and BAMs

Associated Tutorial

This workflows is part of the tutorial From Fastqs to VCFs and BAMs, available in the GTN

Thanks to...

Tutorial Author(s): Galo A. Goig, Daniela Brites, ...

Workflows: Using Workflow Parameters

Associated Tutorial

This workflows is part of the tutorial Select First N Lines, available in the GTN

Thanks to...

Tutorial Author(s): Marius van den Beek, Helena Rasche ...

Network analysis with Heinz

Associated Tutorial

This workflows is part of the tutorial Workflow Constructed From History 'Heinz Workflow Trial Sep 11', available in the GTN

Thanks to...

Tutorial Author(s): Chao Zhang

[![gtn star logo ...

Clustering in Machine Learning

Associated Tutorial

This workflows is part of the tutorial Clustering in Machine Learning, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Alireza ...

introduction

Associated Tutorial

This workflows is part of the tutorial GTN Training: Workflow Reports - Galaxy 101 For Everyone, available in the GTN

Thanks to...

Tutorial Author(s): Saskia Hiltemann

Tutorial Contributor(s): [Helena ...

Estimate a phylogenetic tree from whole genome sequencing data for M. tuberculosis

Associated Tutorial

This workflows is part of the tutorial Mtb phylogeny, available in the GTN

Thanks to...

Tutorial Author(s): Christoph Stritt, [Daniela ...

rna-seq-reads-to-counts

Associated Tutorial

This workflows is part of the tutorial QC report, available in the GTN

Thanks to...

Tutorial Author(s): Maria Doyle, Belinda Phipson, ...

Introduction to Deep Learning

Associated Tutorial

This workflows is part of the tutorial Intro_To_Deep_Learning, available in the GTN

Thanks to...

Tutorial Author(s): Anup Kumar, Alireza Khanteymoori ...

introduction

Associated Tutorial

This workflows is part of the tutorial GTN Training: Workflow Reports, available in the GTN

Features

• Includes a Galaxy Workflow Report

Thanks to...

Tutorial Author(s): [Saskia ...

Tree building for "Phylogenetics - Back to basics"

Associated Tutorial

This workflows is part of the tutorial Tree Building (imported from uploaded file), available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): ...

RNA-Seq reads to counts

Associated Tutorial

This workflows is part of the tutorial RNA Seq Reads To Counts, available in the GTN

Thanks to...

Tutorial Author(s): Maria Doyle, Belinda Phipson, ...

Machine learning: classification and regression

Associated Tutorial

This workflows is part of the tutorial Classification LSVC, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Anup ...

workflow-automation

Associated Tutorial

This workflows is part of the tutorial vcf2lineage, available in the GTN

Thanks to...

Tutorial Author(s): Simon Bray, Wolfgang Maier ...

Associated Tutorial

This workflows is part of the tutorial Training Sanger sequences CHD8, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Coline ...

RNA-RNA interactome analysis using ChiRA tool suite

Associated Tutorial

This workflows is part of the tutorial RNA-RNA interactome data analysis - chira v1.4.3, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

**Tutorial ...

Intermine import/export

Associated Tutorial

This workflows is part of the tutorial Intermine import/export, available in the GTN

Thanks to...

Tutorial Author(s): Daniela Butano, Yo Yehudi ...

workflow-editor

Associated Tutorial

This workflows is part of the tutorial Subworkflow, available in the GTN

Features

• Uses subworkflows

Thanks to...

Tutorial Author(s): Marius van den Beek ...

Machine learning: classification and regression

Associated Tutorial

This workflows is part of the tutorial Regression GradientBoosting, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Anup ...

Associated Tutorial

This workflows is part of the tutorial Sanger1 : From AB1 to aligned consensus and primers fasta + BLAST, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Coline ...

RAD-Seq de-novo data analysis

Associated Tutorial

This workflows is part of the tutorial de novo Rad Seq, available in the GTN

Thanks to...

Tutorial Author(s): Yvan Le Bras

[![gtn star logo followed by the word ...

CLIP-Seq data analysis from pre-processing to motif detection

Associated Tutorial

This workflows is part of the tutorial Tutorial CLIPseq Explorer Demultiplexed PEAKachu eCLIP Hg38 , available in the GTN

Thanks to...

Tutorial Author(s): Florian Heyl, [Daniel ...

PanCancer Aberrant Pathway Activity Analysis: PI3K example

Associated Tutorial

This workflows is part of the tutorial papaa@0.1.9_PI3K_OG_model_tutorial, available in the GTN

Thanks to...

Tutorial Author(s): Vijay, [Daniel ...

Compute and analyze biodiversity metrics with PAMPA toolsuite

Associated Tutorial

This workflows is part of the tutorial Compute and analyze biodiversity metrics with PAMPA toolsuite, available in the GTN

Thanks to...

Tutorial Author(s): Coline Royaux, ...

Quality Control

Associated Tutorial

This workflows is part of the tutorial GTN - Sequence Analyses - Quality Control (imported from uploaded file), available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): ...

This workflow completes the first part of the small RNA-seq tutorial from read pre-processing to trimming.e

Associated Tutorial

This workflows is part of the tutorial sRNA Seq Step 1: Read Pre Processing And Removal Of Artifacts (no Grooming), available in the GTN

Thanks to...

Tutorial Author(s): [Mallory ...

Age prediction using machine learning

Associated Tutorial

This workflows is part of the tutorial Age Prediction RNA-Seq, available in the GTN

Thanks to...

Tutorial Author(s): Ekaterina Polkh, Anup Kumar ...

This workflow completes the second part of the sRNA-seq tutorial from transcript quantification through differential abundance testing.

Associated Tutorial

This workflows is part of the tutorial sRNA Seq Step 2: Salmon And DESeq2, available in the GTN

Thanks to...

Tutorial Author(s): Mallory Freeberg ...

Biodiversity data exploration

Associated Tutorial

This workflows is part of the tutorial Workflow 'Biodiversity data exploration tuto', available in the GTN

Thanks to...

Tutorial Author(s): Olivier Norvez, [Marie ...

Age prediction using machine learning

Associated Tutorial

This workflows is part of the tutorial Age Prediction DNA Methylation, available in the GTN

Thanks to...

Tutorial Author(s): Ekaterina Polkh, Anup Kumar ...

Associated Tutorial

This workflows is part of the tutorial scATAC-seq Count Matrix Filtering, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Pavankumar ...

Removal of human reads from SARS-CoV-2 sequencing data

Associated Tutorial

This workflows is part of the tutorial GTN - Sequence Analyses - Removal of human reads from SARS-CoV-2 sequencing data, available in the GTN

Thanks to...

Tutorial Author(s): Wolfgang Maier ...

Metabarcoding/eDNA through Obitools

Associated Tutorial

This workflows is part of the tutorial Workflow constructed from history 'Tuto Obitools', available in the GTN

Thanks to...

Tutorial Author(s): Coline Royaux, [Olivier ...

Associated Tutorial

This workflows is part of the tutorial Intro_To_RNN_v1_0_10_0, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): Kaivan Kamali ...

Associated Tutorial

This workflows is part of the tutorial NCBI to Anndata, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): Morgan Howells ...

Analyse HeLa fluorescence siRNA screen

Associated Tutorial

This workflows is part of the tutorial Analyse HeLa fluorescence siRNA screen, available in the GTN

Features

• Includes Galaxy Workflow Tests
• Uses ...

Associated Tutorial

This workflows is part of the tutorial Analyse HeLa fluorescence siRNA screen, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Workflow Author(s): Till Korten, Leonid Kostrykin

Tutorial Author(s): ...

Mapping

Associated Tutorial

This workflows is part of the tutorial GTN - Sequence Analyses - Mapping - Jbrowse (imported from uploaded file), available in the GTN

Thanks to...

Tutorial Author(s): Joachim Wolff, [Bérénice ...

Cleaning GBIF data for the use in Ecology

Associated Tutorial

This workflows is part of the tutorial GBIF data Quality check and filtering workflow Feb-2020, available in the GTN

Thanks to...

Tutorial Author(s): Yvan Le Bras, [Simon ...

End-to-End Tissue Microarray Analysis with Galaxy-ME

Associated Tutorial

This workflows is part of the tutorial GTN_Exemplar_002_TMA_workflow, available in the GTN

Thanks to...

Tutorial Author(s): Cameron Watson, [Allison ...

Downstream Single-cell RNA Plant analysis with ScanPy

Associated Tutorial

This workflows is part of the tutorial scRNA Plant Analysis, available in the GTN

Thanks to...

Tutorial Author(s): Mehmet Tekman, Beatriz Serrano-Solano, ...

Mapping

Associated Tutorial

This workflows is part of the tutorial GTN - Sequence Analyses - Mapping (imported from uploaded file), available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Joachim ...

This workflow begins from a set of genome assemblies of different samples, strains, species. The genome is first annotated with Funnanotate. Predicted proteins are furtner annotated with Busco. Next, 'ProteinOrtho' finds orthologs across the samples and makes orthogroups. Orthogroups where all samples are represented are extracted. Orthologs in each orthogroup are aligned with ClustalW. The alignments are cleaned with ClipKIT and the concatenation matrix is built using PhyKit. This can be used ...

This workflow generates a single cell matrix using Alevin.

Associated Tutorial

This workflows is part of the tutorial Generating a single cell matrix using Alevin, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

**Tutorial ...

Nucleoli segmentation and feature extraction using CellProfiler

Associated Tutorial

This workflows is part of the tutorial CP_pipeline_IDR_training, available in the GTN

Thanks to...

Tutorial Author(s): Beatriz Serrano-Solano, [Jean-Karim ...

This workflow creates an ESet object from scRNA metadata file and EBI SCXA retrieveal

Associated Tutorial

This workflows is part of the tutorial MuSiC-Deconvolution: Data generation | sc | matrix + ESet, available in the GTN

Features

• Uses subworkflows ...

Visualization of Climate Data using NetCDF Xarray Map Plotting

Associated Tutorial

This workflows is part of the tutorial Xarray_Map_Plotting_Workflow, available in the GTN

Thanks to...

Tutorial Author(s): Soumya Jha

Workflow Author(s): Soumya Jha ...

Workflow based on clustering 3K PBMCs with Scanpy tutorial

Associated Tutorial

This workflows is part of the tutorial Clustering 3K PBMCs with Scanpy, available in the GTN

Features

• Includes Galaxy Workflow Tests
• Includes a [Galaxy Workflow ...

Associated Tutorial

This workflows is part of the tutorial Introduction to Image Analysis using Galaxy, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Workflow Author(s): Till Korten, Leonid Kostrykin

**Tutorial ...

This workflow generates from only an EBI SCXA reference the metadata for creating an ESet object

Associated Tutorial

This workflows is part of the tutorial MuSiC-Deconvolution: Data generation | sc | metadata, available in the GTN

Thanks to...

Tutorial Author(s): Wendi Bacon, ...

Compute indicators for Champs blocs

Associated Tutorial

This workflows is part of the tutorial Champs blocs indicators, available in the GTN

Thanks to...

Tutorial Author(s): Marie Josse, Yvan Le Bras ...

AnnData to Seurat format conversion (manually using Galaxy buttons)

Associated Tutorial

This workflows is part of the tutorial AnnData to Seurat conversion, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

**Tutorial ...

example cellprofiler pipeline

Associated Tutorial

This workflows is part of the tutorial CP_object_tracking_example, available in the GTN

Thanks to...

Tutorial Author(s): Yi Sun, Beatriz Serrano-Solano, ...

This workflow will create a simple plot of a microbial sized genome (e.g. E. coli) using a couple of datasets like sequencing depth (bigwigs), gff3 formatted annotations, and some variants.

Associated Tutorial

This workflows is part of the tutorial Circos for E. Coli, available in the GTN

Features

• Includes [Galaxy Workflow ...

From Obis data to Biodiversity indicators

Associated Tutorial

This workflows is part of the tutorial Marine Omics visualisation, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Marie ...

AnnData to CDS format conversion (manually using Galaxy buttons). This workflow does not include renaming the column containing gene symbols.

Associated Tutorial

This workflows is part of the tutorial AnnData to Cell Data Set (CDS) conversion, available in the GTN

Features

• Includes [Galaxy Workflow ...

RAD-Seq Reference-based data analysis

Associated Tutorial

This workflows is part of the tutorial Workflow Constructed From History 'STACKS RAD: Population Genomics With Reference Genome', available in the GTN

Thanks to...

Tutorial Author(s): Yvan Le Bras ...

Visualisation with Circos

Associated Tutorial

This workflows is part of the tutorial Circos: Nature workflow, available in the GTN

Thanks to...

Tutorial Author(s): Saskia Hiltemann, Helena Rasche, ...

Visualisation with Circos

Associated Tutorial

This workflows is part of the tutorial Circos tutorial, available in the GTN

Thanks to...

Tutorial Author(s): Saskia Hiltemann, Helena Rasche, ...

AnnData to SCE format conversion (manually using Galaxy buttons)

Associated Tutorial

This workflows is part of the tutorial AnnData to SingleCellExperiment (SCE) conversion, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

...

Associated Tutorial

This workflows is part of the tutorial Cell Cycle Regression Workflow, available in the GTN

Thanks to...

Tutorial Author(s): Marisa Loach

Tutorial Contributor(s): Wendi Bacon, ...

RAD-Seq Reference-based data analysis

Associated Tutorial

This workflows is part of the tutorial Ref Based Rad Seq, available in the GTN

Thanks to...

Tutorial Author(s): Yvan Le Bras

[![gtn star logo followed by the word ...

Peptide Library Data Analysis

Associated Tutorial

This workflows is part of the tutorial Copy of PeptideDataAnalysis (imported from uploaded file), available in the GTN

Thanks to...

Tutorial Author(s): Jayadev Joshi, [Daniel ...

Associated Tutorial

This workflows is part of the tutorial Scanpy Parameter Iterator workflow full (imported from URL), available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Julia ...

Associated Tutorial

This workflows is part of the tutorial NDVI with OpenEO, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): Marie Josse ...

Single-cell quality control with scater

Associated Tutorial

This workflows is part of the tutorial Scater, available in the GTN

Thanks to...

Tutorial Author(s): Graham Etherington, Nicola Soranzo ...

MaxQuant and MSstats for the analysis of label-free data

Associated Tutorial

This workflows is part of the tutorial Proteomics: MaxQuant and MSstats LFQ workflow, available in the GTN

Thanks to...

Tutorial Author(s): Melanie Föll, [Matthias ...

Associated Tutorial

This workflows is part of the tutorial NDVI with OpenEO, available in the GTN

Thanks to...

Tutorial Author(s): Marie Josse

Workflow Author(s): Marie Jossé

Funder(s): Fair-Ease, ...

Associated Tutorial

This workflows is part of the tutorial Inferring Trajectories with Scanpy Tutorial Workflow, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Marisa ...

Trajectory analysis using Monocle3, starting from 3 input files: expression matrix, gene and cell annotations

Associated Tutorial

This workflows is part of the tutorial Monocle3 workflow, available in the GTN

Thanks to...

Tutorial Author(s): Julia Jakiela ...

Proteogenomics 3: Novel peptide analysis

Associated Tutorial

This workflows is part of the tutorial GTN Proteogemics3 Novel Peptide Analysis, available in the GTN

Thanks to...

Tutorial Author(s): Subina Mehta, [Timothy J. ...

Species distribution modeling

Associated Tutorial

This workflows is part of the tutorial Species Distribution Modeling With Wallace From GBIF - Training Material, available in the GTN

Thanks to...

Tutorial Author(s): Elisa Michon, [Yvan Le ...

Bulk RNA Deconvolution with MuSiC

Associated Tutorial

This workflows is part of the tutorial MuSiC Workflow, available in the GTN

Thanks to...

Tutorial Author(s): Mehmet Tekman, Wendi Bacon ...

Preparing and filtering gene and cell annotations files and expression matrix to be passed as input for Monocle

Associated Tutorial

This workflows is part of the tutorial AnnData object to Monocle input files, available in the GTN

Thanks to...

Tutorial Author(s): Julia Jakiela ...

Biomarker candidate identification

Associated Tutorial

This workflows is part of the tutorial 'Biomarkers4Paris' Workflow, available in the GTN

Thanks to...

Tutorial Author(s): Florence Combes, David Christiany, ...

Regional GAM

Associated Tutorial

This workflows is part of the tutorial Abundance Index "stacked" Visualization Creation, available in the GTN

Thanks to...

Tutorial Author(s): Clara Urfer, Elisa Michon, ...

This workflow creates bulk ESet objects from uploaded raw matrix & metadata files

Associated Tutorial

This workflows is part of the tutorial MuSiC-Deconvolution: Data generation | bulk | ESet, available in the GTN

Features

• Uses subworkflows ...

Regional GAM

Associated Tutorial

This workflows is part of the tutorial Tutorial regionalGAM Complete Multispecies, available in the GTN

Thanks to...

Tutorial Author(s): Clara Urfer, Elisa Michon, ...

Trajectory analysis using Monocle3, starting from AnnData

Associated Tutorial

This workflows is part of the tutorial Trajectory analysis using Monocle3 - full tutorial workflow, available in the GTN

Features

• Includes Galaxy Workflow Tests ...

MaxQuant and MSstats for the analysis of TMT data

Associated Tutorial

This workflows is part of the tutorial MaxQuant MSstatsTMT Training, available in the GTN

Thanks to...

Tutorial Author(s): Klemens Fröhlich, [Melanie ...

Regional GAM

Associated Tutorial

This workflows is part of the tutorial Phenology "stacked" Visualization Creation, available in the GTN

Thanks to...

Tutorial Author(s): Clara Urfer, Elisa Michon, ...

Updated March 2024

Associated Tutorial

This workflows is part of the tutorial Combining datasets after pre-processing, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Wendi ...

DIA library Training HEK Ecoli data

Associated Tutorial

This workflows is part of the tutorial DIA_lib_OSW, available in the GTN

Thanks to...

Tutorial Author(s): Matthias Fahrner, Melanie Föll ...

This workflow runs 3 comparisons using MuSiC Deconvolution compare: where datasets cell compositions are inferred from a reference containing healthy and diseased cells; where diseased are inferred from disease and healthy from healthy; and where both diseased and healthy are inferred from a healthy reference.

Associated Tutorial

This workflows is part of the tutorial MuSiC-Deconvolution: Compare, ...

Regional GAM

Associated Tutorial

This workflows is part of the tutorial Regional GAM Workflow, available in the GTN

Thanks to...

Tutorial Author(s): Clara Urfer, Elisa Michon, [Yvan Le ...

metaquantome-function

Associated Tutorial

This workflows is part of the tutorial metaquantome-function-worklow, available in the GTN

Thanks to...

Tutorial Author(s): Subina Mehta, Timothy J. Griffin, ...

Associated Tutorial

This workflows is part of the tutorial Pre-processing of 10X Single-Cell RNA Datasets, available in the GTN

Features

• Includes Galaxy Workflow Tests
• Includes a [Galaxy Workflow ...

Updated tool versions Aug 24 2022

Associated Tutorial

This workflows is part of the tutorial CS3_Filter, Plot and Explore Single-cell RNA-seq Data, available in the GTN

Thanks to...

Tutorial Author(s): Wendi Bacon

Tutorial Contributor(s): ...

Pre-processing of Single-Cell RNA Data

Associated Tutorial

This workflows is part of the tutorial CelSeq2: Multi Batch (mm10), available in the GTN

Features

• Uses subworkflows

Thanks to...

Tutorial Author(s): [Mehmet ...

Checking expected species and contamination in bacterial isolate

Associated Tutorial

This workflows is part of the tutorial Checking expected species and contamination in bacterial isolate, available in the GTN

Features

• Includes Galaxy Workflow Tests ...

RAD-Seq to construct genetic maps

Associated Tutorial

This workflows is part of the tutorial Genetic Map Rad Seq Workflow, available in the GTN

Thanks to...

Tutorial Author(s): Yvan Le Bras

[![gtn star logo followed by the word ...

Peptide and Protein Quantification via Stable Isotope Labelling (SIL)

Associated Tutorial

This workflows is part of the tutorial Proteomics: Peptide and Protein Quantification via stable istobe labeling, available in the GTN

Features

• Includes Galaxy Workflow Tests ...

Pre-processing of Single-Cell RNA Data

Associated Tutorial

This workflows is part of the tutorial CelSeq2: Single Batch (mm10), available in the GTN

Thanks to...

Tutorial Author(s): Mehmet Tekman, Bérénice Batut, ...

Filter, Plot and Explore Single-cell RNA-seq Data

Associated Tutorial

This workflows is part of the tutorial Filter, Plot and Explore Single-cell RNA-seq Data updated, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks

...

Detection and quantitation of N-termini (degradomics) via N-TAILS

Associated Tutorial

This workflows is part of the tutorial Tails Triple Dimethyl OpenMS2.1, available in the GTN

Thanks to...

Tutorial Author(s): Florian Christoph Sigloch, [Björn ...

Associated Tutorial

This workflows is part of the tutorial Sentinel 2 example, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): Marie Josse, ...

Creates input file for Filter, Plot, Explore tutorial

Associated Tutorial

This workflows is part of the tutorial EBI SCXA to AnnData (Scanpy) or Seurat Object, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

**Tutorial ...

Annotating a protein list identified by LC-MS/MS experiments

Associated Tutorial

This workflows is part of the tutorial ProteoRE ProteomeAnnotation Tutorial (release 2.0), available in the GTN

Thanks to...

Tutorial Author(s): Valentin Loux, [Florence ...

Associated Tutorial

This workflows is part of the tutorial scATAC-seq FASTQ to Count Matrix, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Pavankumar ...

Annotating a protein list identified by LC-MS/MS experiments

Associated Tutorial

This workflows is part of the tutorial 'Proteome Annotation', available in the GTN

Thanks to...

Tutorial Author(s): Valentin Loux, [Florence ...

Data Manipulation Olympics

Associated Tutorial

This workflows is part of the tutorial GTN Tutorial: Data manipulation Olympics - all steps and exercises, available in the GTN

Thanks to...

Tutorial Author(s): Saskia Hiltemann

**Tutorial ...

Downstream Single-cell RNA analysis with RaceID

Associated Tutorial

This workflows is part of the tutorial RaceID Workflow, available in the GTN

Thanks to...

Tutorial Author(s): Mehmet Tekman, Alex Ostrovsky ...

Protein FASTA Database Handling

Associated Tutorial

This workflows is part of the tutorial Proteomics: database handling, available in the GTN

Thanks to...

Tutorial Author(s): Florian Christoph Sigloch, [Björn ...

From Copernicus Sentinel 5P data to panoply visualization of volcanic activity impact to atmosphere

Associated Tutorial

This workflows is part of the tutorial Sentinel5 volcanic data, available in the GTN

Thanks to...

Tutorial Author(s): Marie Josse

**Workflow ...

Structural and functional genome annotation with Funannotate

Associated Tutorial

This workflows is part of the tutorial Funannotate, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Anthony ...

Proteogenomics Galaxy Training Network Database Creation

Associated Tutorial

This workflows is part of the tutorial GTN Proteogenomics1 Database Creation, available in the GTN

Thanks to...

Tutorial Author(s): Subina Mehta, [Timothy J. ...

Subset data on the Mediterreanean see and extract and visualise the Phosphate variable

Associated Tutorial

This workflows is part of the tutorial Ocean's variables study, available in the GTN

Features

• Includes Galaxy Workflow Tests
• Includes a [Galaxy ...

Protein FASTA Database Handling

Associated Tutorial

This workflows is part of the tutorial Proteomics: database handling including mycoplasma, available in the GTN

Thanks to...

Tutorial Author(s): Florian Christoph Sigloch, [Björn ...

Masking repeats in a genome using RepeatMasker

Associated Tutorial

This workflows is part of the tutorial RepeatMasker, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Anthony ...

Assembly with preprocessing and SRA download

Associated Tutorial

This workflows is part of the tutorial assembly_with_preprocessing_and_sra_download, available in the GTN

Thanks to...

Tutorial Author(s): Wolfgang Maier

[![gtn star logo followed by the ...

Workflow for GTN Pangeo 101 for everyone - Introduction to Xarray

Associated Tutorial

This workflows is part of the tutorial GTN 'Pangeo 101 for everyone - Xarray', available in the GTN

Thanks to...

Tutorial Author(s): Anne Fouilloux

Workflow Author(s): Anne Fouilloux ...

ML Modeling of Anti-cancer Peptides

Associated Tutorial

This workflows is part of the tutorial PeptideML, available in the GTN

Thanks to...

Tutorial Author(s): Jayadev Joshi, Daniel Blankenberg ...

Genome annotation with Maker (short)

Associated Tutorial

This workflows is part of the tutorial Genome annotation with Maker (short), available in the GTN

Thanks to...

Tutorial Author(s): Anthony Bretaudeau

[![gtn star logo followed by the ...

Process argo data with the Pangeo Ecosystem and visualise them with Ocean Data View (ODV)

Associated Tutorial

This workflows is part of the tutorial Analyse Argo data , available in the GTN

Thanks to...

Tutorial Author(s): Marie Josse

Workflow Author(s): Marie ...

tutorial

Associated Tutorial

This workflows is part of the tutorial Intro to Genome Assembly, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): Simon Gladman ...

Peptide and Protein ID using OpenMS tools

Associated Tutorial

This workflows is part of the tutorial Peptide And Protein ID Via OMS Using Two Search Engines, available in the GTN

Thanks to...

Tutorial Author(s): Florian Christoph Sigloch, [Björn ...

Refining Genome Annotations with Apollo

Associated Tutorial

This workflows is part of the tutorial Apollo Load Test, available in the GTN

Thanks to...

Tutorial Author(s): Anthony Bretaudeau, Helena Rasche, ...

Workflow for GTN Pangeo Notebook in Galaxy - Introduction to Xarray

Associated Tutorial

This workflows is part of the tutorial Pangeo Jupyter Notebook, available in the GTN

Thanks to...

Tutorial Author(s): Anne Fouilloux

Workflow Author(s): Anne Fouilloux ...

Peptide and Protein ID using OpenMS tools

Associated Tutorial

This workflows is part of the tutorial Proteomics: Peptide and Protein ID using OpenMS, available in the GTN

Thanks to...

Tutorial Author(s): Florian Christoph Sigloch, [Björn ...

VGP assembly tutorial

Associated Tutorial

This workflows is part of the tutorial VGP assembly: training workflow, available in the GTN

Thanks to...

Tutorial Author(s): Delphine Lariviere, Alex Ostrovsky, ...

Genome annotation with Prokka

Associated Tutorial

This workflows is part of the tutorial Genome Annotation with Prokka , available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Anna ...

Functionally Assembled Terrestrial Ecosystem Simulator (FATES)

Associated Tutorial

This workflows is part of the tutorial CLM-FATES_ ALP1 simulation (5 years), available in the GTN

Thanks to...

Tutorial Author(s): Anne Fouilloux, [Hui ...

Mass spectrometry imaging: Loading and exploring MSI data

Associated Tutorial

This workflows is part of the tutorial MS Imaging Loading Exploring Data, available in the GTN

Thanks to...

Tutorial Author(s): Melanie Föll, ...

Functional annotation of protein sequences

Associated Tutorial

This workflows is part of the tutorial Functional annotation, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Anthony ...

Unicycler Assembly

Associated Tutorial

This workflows is part of the tutorial Unicycler training, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): Anton Nekrutenko, ...

Hi-C analysis of Drosophila melanogaster cells using HiCExplorer

Associated Tutorial

This workflows is part of the tutorial Galaxy Workflow Galaxy Hi C, available in the GTN

Thanks to...

Tutorial Author(s): Joachim Wolff, [Fidel ...

DIA Analysis Training using HEK Ecoli data in OSW

Associated Tutorial

This workflows is part of the tutorial DIA_Analysis_OSW, available in the GTN

Thanks to...

Tutorial Author(s): Matthias Fahrner, Melanie Föll ...

CRISPR screen analysis

Associated Tutorial

This workflows is part of the tutorial Workflow constructed from history 'CRISPR tutorial Kenji', available in the GTN

Thanks to...

Tutorial Author(s): Maria Doyle, [Kenji ...

Genome Assembly of MRSA from Oxford Nanopore MinION data (and optionally Illumina data)

Associated Tutorial

This workflows is part of the tutorial Genome Assembly of MRSA using Oxford Nanopore MinION (and Illumina data if available), available in the GTN

Features

• Includes Galaxy Workflow Tests ...

metaquantome-data-creation

Associated Tutorial

This workflows is part of the tutorial metaQuantome_datacreation_workflow, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Subina ...

Associated Tutorial

This workflows is part of the tutorial Combined workflows for large genome assembly - upgraded , available in the GTN

Features

• Includes a Galaxy Workflow Report
• Uses subworkflows ...

Identification of the binding sites of the T-cell acute lymphocytic leukemia protein 1 (TAL1)

Associated Tutorial

This workflows is part of the tutorial Identification of the binding sites of the T-cell acute lymphocytic leukemia protein 1 (TAL1), available in the GTN

Features

• Includes [Galaxy Workflow ...

Associated Tutorial

This workflows is part of the tutorial Assembly polishing - upgraded, available in the GTN

Features

• Includes a Galaxy Workflow Report
• Uses subworkflows ...

Workflows for comparison of genes in annotated genomes

Associated Tutorial

This workflows is part of the tutorial Comparative gene analysis, available in the GTN

Thanks to...

Tutorial Author(s): Anton Nekrutenko

Workflow Author(s): Anton Nekrutenko

[![gtn ...

Peptide and Protein ID using SearchGUI and PeptideShaker

Associated Tutorial

This workflows is part of the tutorial Peptide And Protein ID Tutorial, available in the GTN

Thanks to...

Tutorial Author(s): Florian Christoph Sigloch, [Björn ...

Peptide and Protein ID using SearchGUI and PeptideShaker

Associated Tutorial

This workflows is part of the tutorial ProteinID SG PS Tutorial WF datasetCollection, available in the GTN

Thanks to...

Tutorial Author(s): Florian Christoph Sigloch, [Björn ...

Associated Tutorial

This workflows is part of the tutorial Assembly with Flye - upgraded, available in the GTN

Features

• Includes a Galaxy Workflow Report

Thanks to...

Tutorial Author(s): Anna Syme ...

Identification of AMR genes in an assembled bacterial genome

Associated Tutorial

This workflows is part of the tutorial mrsa AMR gene detection, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): ...

atac-seq

Associated Tutorial

This workflows is part of the tutorial ATAC-seq GTM, available in the GTN

Thanks to...

Tutorial Author(s): Lucille Delisle, Maria Doyle, [Florian ...

DIA MSstats Training export tabular

Associated Tutorial

This workflows is part of the tutorial DIA_analysis_MSstats, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Matthias ...

Associated Tutorial

This workflows is part of the tutorial kmer counting - meryl - upgraded, available in the GTN

Features

• Includes a Galaxy Workflow Report

Thanks to...

Tutorial Author(s): Anna Syme ...

The workflow containes the step to perpare the data for and run Galaxy Infinium Human Methylation BeadChip tool that represents many popular algorithms for detecting somatic genetic alterations from genome and exome data

Associated Tutorial

This workflows is part of the tutorial Infinium Human Methylation BeadChip, available in the GTN

Features

...

Genome annotation with Maker

Associated Tutorial

This workflows is part of the tutorial Genome annotation with Maker , available in the GTN

Thanks to...

Tutorial Author(s): Anthony Bretaudeau

Workflow Author(s): Anthony Bretaudeau, French ...

DIA MSstats Training msstats input tabular

Associated Tutorial

This workflows is part of the tutorial DIA_analysis_MSstats, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Matthias ...

Associated Tutorial

This workflows is part of the tutorial Data QC - upgraded, available in the GTN

Features

• Includes a Galaxy Workflow Report

Thanks to...

Tutorial Author(s): Anna Syme ...

atac-seq

Associated Tutorial

This workflows is part of the tutorial ATAC-seq GTM, available in the GTN

Thanks to...

Tutorial Author(s): Florian Heyl

Tutorial Contributor(s): Helena Rasche, ...

A workflow designed to compare two sequences using GECKO, extract repeats and perform multiple sequence alignment

Associated Tutorial

This workflows is part of the tutorial GECKO pairwise comparison, available in the GTN

Thanks to...

Tutorial Author(s): Esteban Perez-Wohlfeil ...

Metaproteomics tutorial

Associated Tutorial

This workflows is part of the tutorial Metaproteomics_GTN, available in the GTN

Thanks to...

Tutorial Author(s): Timothy J. Griffin, Pratik Jagtap, ...

Associated Tutorial

This workflows is part of the tutorial Assess genome quality - upgraded, available in the GTN

Features

• Includes a Galaxy Workflow Report

Thanks to...

Tutorial Author(s): Anna Syme ...

DNA Methylation data analysis

Associated Tutorial

This workflows is part of the tutorial Workflow Methylation Seq, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Joachim ...

A workflow designed to compare chromosomes and study large-scale rearrangements using CHROMEISTER

Associated Tutorial

This workflows is part of the tutorial CHROMEISTER chromosome comparison, available in the GTN

Thanks to...

Tutorial Author(s): Esteban Perez-Wohlfeil ...

metaquantome-taxonomy

Associated Tutorial

This workflows is part of the tutorial metaquantome-taxonomy-workflow, available in the GTN

Thanks to...

Tutorial Author(s): Subina Mehta, Timothy J. Griffin, ...

Associated Tutorial

This workflows is part of the tutorial Racon polish with long reads, x4 - upgraded, available in the GTN

Features

• Includes a Galaxy Workflow Report

Thanks to...

Tutorial Author(s): [Anna ...

Associated Tutorial

This workflows is part of the tutorial GTN - ChIP Seq - Formation Of Super Structures On Xi, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): [Friederike ...

Identification of the binding sites of the Estrogen receptor

Associated Tutorial

This workflows is part of the tutorial Identification Of The Binding Sites Of The Estrogen Receptor - Qc Mapping, available in the GTN

Thanks to...

Tutorial Author(s): Friederike Dündar, ...

Proteogenomics 2: Database Search

Associated Tutorial

This workflows is part of the tutorial GTN Proteogemics2 Database Search, available in the GTN

Thanks to...

Tutorial Author(s): Subina Mehta, [Timothy J. ...

Identification of the binding sites of the Estrogen receptor

Associated Tutorial

This workflows is part of the tutorial Identification Of The Binding Sites Of The Estrogen Receptor - Chip Seq, available in the GTN

Thanks to...

Tutorial Author(s): Friederike Dündar, ...

Essential genes detection with Transposon insertion sequencing

Associated Tutorial

This workflows is part of the tutorial Essential genes detection with Transposon insertion sequencing, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks

...

Associated Tutorial

This workflows is part of the tutorial Racon polish with Illumina reads (R1 only), x2 - upgraded, available in the GTN

Thanks to...

Tutorial Author(s): Anna Syme

Workflow Author(s): Anna Syme

[![gtn star logo followed by the word ...

Design plasmids encoding predicted pathways by using the BASIC assembly method.

Associated Tutorial

This workflows is part of the tutorial Genetic Design (BASIC Assembly), available in the GTN

Thanks to...

Tutorial Author(s): Kenza Bazi-Kabbaj, ...

encyclopedia- DIA Metaproteomics

Associated Tutorial

This workflows is part of the tutorial EncyclopeDIA, available in the GTN

Features

• Includes Galaxy Workflow Tests
• Includes a Galaxy Workflow Report ...

Associated Tutorial

This workflows is part of the tutorial Gene Cluster Product Similarity Search , available in the GTN

Thanks to...

Tutorial Author(s): Paul Zierep

[![gtn star logo followed by the word ...

Associated Tutorial

This workflows is part of the tutorial Trim and filter reads - fastp - upgraded , available in the GTN

Features

• Includes a Galaxy Workflow Report

Thanks to...

Tutorial Author(s): [Anna ...

version 1.0, 160318, published at https://github.com/Stortebecker/secretome_prediction

Associated Tutorial

This workflows is part of the tutorial Secreted Proteins Via GO Annotation And WoLF PSORT For shCTSB Paper, available in the GTN

Thanks to...

Tutorial Author(s): [Florian Christoph ...

Generating theoretical possible pathways for the production of Lycopene in E.Coli using Retrosynthesis tools

Associated Tutorial

This workflows is part of the tutorial RetroSynthesis, available in the GTN

Thanks to...

Tutorial Author(s): Guillaume Gricourt, ...

Long non-coding RNAs (lncRNAs) annotation with FEELnc

Associated Tutorial

This workflows is part of the tutorial Long non-coding RNAs (lncRNAs) annotation with FEELnc, available in the GTN

Thanks to...