Workflows
What is a Workflow?Filters
V-pipe is a snakemake pipeline designed for analysing NGS data of short viral genomes.
Type: Common Workflow Language
Creators: Alban Gaignard, Susana Posada Céspedes, David Seifert, Tobias Marschall, Niko Beerenwinkel
Submitter: Alban Gaignard
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This PyCOMPSs workflow tutorial aims to illustrate the process of setting up a simulation system containing a protein, step by step, using the BioExcel Building Blocks library (biobb) in PyCOMPSs for execution on HPC. Three variants of the MD Setup workflows are included, supporting a list of structures, a list of mutations, or a cumulative set of mutations.
Summary
This notebook demonstrates how to retrieve metadata associated to the paper A SARS-CoV-2 cytopathicity dataset generated by high-content screening of a large drug repurposing collection and available in IDR at idr0094-ellinger-sarscov2. Over 300 compounds were used in this investigation. This notebook allows the user to calculate the half maximal inhibitory concentration (IC50) for ...
Workflow for quality assessment of paired reads and classification using NGTax 2.0 and functional annotation using picrust2. In addition files are exported to their respective subfolders for easier data management in a later stage. Steps:
- FastQC (read quality control)
- NGTax 2.0
- Picrust 2
- Export module for ngtax
This PyCOMPSs workflow tutorial aims to illustrate the process of setting up a simulation system containing a protein, step by step, using the BioExcel Building Blocks library (biobb) in PyCOMPSs for execution on HPC. Three variants of the MD Setup workflows are included, supporting a list of structures, a list of mutations, or a cumulative set of mutations.
RO-Crate containing execution provenance about the MaxQuant-Workflow that analyze label-free data with MaxQuant based on Nextflow, running with SDRF implemented. Normalization and statistical comparisons using NormalyzerDE are conducted on the MaxQuant result
