Workflows

What is a Workflow?

138 Workflows visible to you, out of a total of 138

haploid-variant-calling-wgs-pe/main

Intergalactic Workflow Commission (IWC)

Tests Not available

Workflow for variant analysis against a reference genome in GenBank format

Type: Galaxy

Creator: Anton Nekrutenko

Submitter: WorkflowHub Bot

Created: 30th Oct 2024 at 03:02

nf-core/scnanoseq

nf-core

Single-cell/nuclei pipeline for data derived from Oxford Nanopore

Type: Nextflow

Creators: Austyn Trull, Lara Ianov

Submitter: WorkflowHub Bot

Created: 8th Oct 2024 at 04:03

Assembly-decontamination-VGP9/main

Intergalactic Workflow Commission (IWC)

Tests Not available

No description specified

Type: Galaxy

Creator: Nadolina Brajuka

Submitter: WorkflowHub Bot

Created: 8th Nov 2023 at 03:01, Last updated: 7th Oct 2024 at 16:34

Scaffolding-HiC-VGP8/main

Intergalactic Workflow Commission (IWC)

Scaffolding using HiC data with YAHS.

Type: Galaxy

Creator: VGP, Galaxy

Submitter: WorkflowHub Bot

Created: 27th Oct 2023 at 03:01, Last updated: 7th Oct 2024 at 16:33

nf-core/multiplesequencealign

nf-core

Pipeline to run and benchmark multiple sequence alignment tools.

Type: Nextflow

Creators: Luisa Santus, Jose Espinosa Carrasco

Submitter: WorkflowHub Bot

Created: 5th Oct 2024 at 04:03

clinicalmp-quantitation/main

Intergalactic Workflow Commission (IWC)

Clinical Metaproteomics 4: Quantitation

Type: Galaxy

Creator: GalaxyP

Submitter: WorkflowHub Bot

Created: 3rd Oct 2024 at 03:03

sars-cov-2-pe-illumina-artic-ivar-analysis/SARS-COV-2-ILLUMINA-AMPLICON-IVAR-PANGOLIN-NEXTCLADE

Intergalactic Workflow Commission (IWC)

Find and annotate variants in ampliconic SARS-CoV-2 Illumina sequencing data and classify samples with pangolin and nextclade

Type: Galaxy

Creators: Peter van Heusden, Peter van Heusden

Submitter: WorkflowHub Bot

Created: 31st Aug 2021 at 03:01, Last updated: 3rd Oct 2024 at 03:03

sars-cov-2-variation-reporting/COVID-19-VARIATION-REPORTING

Intergalactic Workflow Commission (IWC)

This workflow takes a VCF dataset of variants produced by any of the *-variant-calling workflows in https://github.com/galaxyproject/iwc/tree/main/workflows/sars-cov-2-variant-calling and generates tabular lists of variants by Samples and by Variant, and an overview plot of variants and their allele-frequencies.

Type: Galaxy

Creators: Wolfgang Maier, Wolfgang Maier

Submitter: WorkflowHub Bot

Created: 12th Mar 2021 at 13:41, Last updated: 3rd Oct 2024 at 03:02

sars-cov-2-pe-illumina-artic-variant-calling/COVID-19-PE-ARTIC-ILLUMINA

Intergalactic Workflow Commission (IWC)

COVID-19: variation analysis on ARTIC PE data

The workflow for Illumina-sequenced ampliconic data builds on the RNASeq workflow for paired-end data using the same steps for mapping and variant calling, but adds extra logic for trimming amplicon primer sequences off reads with the ivar package. In addition, this workflow uses ivar also to identify amplicons affected by primer-binding site mutations and, if possible, excludes reads derived from such ...

Type: Galaxy

Creator: Wolfgang Maier

Submitter: WorkflowHub Bot

DOI: 10.48546/workflowhub.workflow.110.7

Created: 12th Mar 2021 at 13:41, Last updated: 2nd Oct 2024 at 11:01

bacterial-genome-assembly/main

Intergalactic Workflow Commission (IWC)

Tests Not available

Assembly of bacterial paired-end short read data with generation of quality metrics and reports

Type: Galaxy

Creators: Abromics , Pierre Marin, Clea Siguret, abromics-consortium

Submitter: WorkflowHub Bot