Workflows

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144 Workflows visible to you, out of a total of 144

protein-ligand-complex-parameterization/main

Intergalactic Workflow Commission (IWC)

Tests Passing

Protein-ligand complex parameterization

Parameterizes an input protein (PDB) and ligand (SDF) file prior to molecular dynamics simulation with GROMACS.

This is a simple workflow intended for use as a subworkflow in more complex MD workflows. It is used as a subworkflow by the GROMACS MMGBSA and dcTMD workflows.

Type: Galaxy

Creator: Simon Bray

Submitter: WorkflowHub Bot

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Created: 7th Dec 2021 at 03:01, Last updated: 21st Dec 2021 at 03:01

sars-cov-2-ont-artic-variant-calling/COVID-19-ARTIC-ONT

Intergalactic Workflow Commission (IWC)

Tests All failing

COVID-19: variation analysis on ARTIC ONT data

This workflow for ONT-sequenced ARTIC data is modeled after the alignment/variant-calling steps of the ARTIC pipeline. It performs, essentially, the same steps as that pipeline’s minion command, i.e. read mapping with minimap2 and variant calling with medaka. Like the Illumina ARTIC workflow it uses ivar for primer trimming. Since ONT-sequenced reads have a much ...

Type: Galaxy

Creator: Wolfgang Maier

Submitter: WorkflowHub Bot

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Created: 12th Mar 2021 at 13:41, Last updated: 21st Dec 2021 at 03:01

sars-cov-2-se-illumina-wgs-variant-calling/COVID-19-SE-WGS-ILLUMINA

Intergalactic Workflow Commission (IWC)

Tests All failing

COVID-19: variation analysis on WGS SE data

This workflows performs single end read mapping with bowtie2 followed by sensitive variant calling across a wide range of AFs with lofreq and variant annotation with snpEff 4.5covid19.

Type: Galaxy

Creator: Wolfgang Maier

Submitter: WorkflowHub Bot

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Created: 12th Mar 2021 at 13:41, Last updated: 21st Dec 2021 at 03:01

sars-cov-2-pe-illumina-wgs-variant-calling/COVID-19-PE-WGS-ILLUMINA

Intergalactic Workflow Commission (IWC)

Tests Passing

COVID-19: variation analysis on WGS PE data

This workflows performs paired end read mapping with bwa-mem followed by sensitive variant calling across a wide range of AFs with lofreq and variant annotation with snpEff 4.5covid19.

Type: Galaxy

Creator: Wolfgang Maier

Submitter: WorkflowHub Bot

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Created: 12th Mar 2021 at 13:41, Last updated: 21st Dec 2021 at 03:01

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Protein-ligand complex parameterization

COVID-19: variation analysis on ARTIC ONT data

COVID-19: variation analysis on WGS SE data

COVID-19: variation analysis on WGS PE data

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