Workflows

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94 Workflows visible to you, out of a total of 126

COVID-19: consensus construction

This workflow aims at generating reliable consensus sequences from variant calls according to transparent criteria that capture at least some of the complexity of variant calling.

It takes a collection of VCFs and a collection of the corresponding aligned reads (for the purpose of calculating genome-wide coverage) such as produced by any of the four variant calling workflows in https://github.com/galaxyproject/iwc/tree/main/workflows/sars-cov-2-variant-calling ...

Type: Galaxy

Creator: Wolfgang Maier

Submitter: Simone Leo

Parallel Accession Download

Downloads fastq files for sequencing run accessions provided in a text file using fasterq-dump. Creates one job per listed run accession, and is therefore much faster and more robust to errors when many accessions need to be downloaded.

Type: Galaxy

Creator: Marius van den Beek

Submitter: Simone Leo

Work-in-progress

CWL version of the md_list.cwl workflow for HPC. This performs a system setup and runs a molecular dynamics simulation on the structure passed to this workflow. This workflow uses the md_gather.cwl sub-workflow to gather the outputs together to return these. To work with more than one structure this workflow can be called from either the md_launch.cwl workflow, or the md_launch_mutate.cwl workflow. These use scatter for parallelising the workflow. md_launch.cwl operates on a list of individual ...

Type: Common Workflow Language

Creators: None

Submitter: Douglas Lowe

Stable

Exome SAMtools Workflow

Type: Nextflow

Creator: Laura Rodriguez-Navas

Submitter: Laura Rodriguez-Navas

Work-in-progress

I don't even know. Only works on BSC.

Type: Common Workflow Language

Creators: None

Submitter: Stian Soiland-Reyes

Stable

Summary

This tutorial aims to illustrate the process of protein-ligand docking, step by step, using the BioExcel Building Blocks library (biobb). The particular example used is the Mitogen-activated protein kinase 14 (p38-α) protein (PDB code 3HEC), a well-known Protein Kinase enzyme, in complex with the FDA-approved Imatinib, (PDB Ligand code STI, DrugBank Ligand Code DB00619), a small molecule kinase inhibitor used to treat certain types of cancer.

Workflow engine is a jupyter notebook. It ...

Type: Unrecognized workflow type

Creator: Genís Bayarri

Submitter: Douglas Lowe

workflow-test-fixture

A workflow and associated files for use in SEEK's tests

Type: Galaxy

Creator: Finn Bacall

Submitter: Finn Bacall

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