Workflows

What is a Workflow?
793 Workflows visible to you, out of a total of 868

MGnify's amplicon pipeline v5.0. Including the Quality control for single-end and paired-end reads, rRNA-prediction, and ITS sub-WFs.

Type: Galaxy

Creators: Rand Zoabi, Paul Zierep, EMBL's European Bioinformatics Institute

Submitter: WorkflowHub Bot

Classification and visualization of ITS regions.

Type: Galaxy

Creators: Rand Zoabi, Paul Zierep, EMBL's European Bioinformatics Institute

Submitter: WorkflowHub Bot

Quality control subworkflow for paired-end reads.

Type: Galaxy

Creators: Rand Zoabi, Paul Zierep, EMBL's European Bioinformatics Institute

Submitter: WorkflowHub Bot

Quality control subworkflow for single-end reads.

Type: Galaxy

Creators: Rand Zoabi, Paul Zierep, MGnify - EMBL

Submitter: WorkflowHub Bot

Classification and visualization of SSU, LSU sequences.

Type: Galaxy

Creators: Rand Zoabi, Paul Zierep, EMBL's European Bioinformatics Institute

Submitter: WorkflowHub Bot

This workflow creates taxonomic summary tables out of the amplicon pipeline results.

Type: Galaxy

Creator: Rand Zoabi

Submitter: WorkflowHub Bot

Contiging Solo:

Generate assembly based on PacBio Hifi Reads.

Inputs

  1. Hifi long reads [fastq]
  2. K-mer database [meryldb]
  3. Genome profile summary generated by Genomescope [txt]
  4. Homozygous Read Coverage. Optional, use if you think the estimation from Genomescope is inacurate.
  5. Genomescope Model Parameters generated by Genomescope [tabular]
  6. Database for busco lineage (recommended: latest)
  7. Busco lineage (recommended: vertebrata)
  8. Name of first assembly
  9. Name of second ...

Type: Galaxy

Creator: Galaxy, VGP

Submitter: WorkflowHub Bot

Stable

The workflow takes trimmed HiC paired-end reads collection, and Pri/Alt assemblies to produce a scaffolded primary assembliy (and alternate contigs) using YaHS. It also runs all the QC analyses (gfastats, BUSCO, and Merqury).

Type: Galaxy

Creators: Diego De Panis, ERGA

Submitter: Diego De Panis

Work-in-progress

plant2human workflow

GitHub last commit (branch) Status cwltool License Version ...

Type: Common Workflow Language

Creator: Sora Yonezawa

Submitter: Sora Yonezawa

DOI: 10.48546/workflowhub.workflow.1206.5

Calculate extended gamma-ray source halo using crbeam simulation

Type: Galaxy

Creators: None

Submitter: Oleg Kalashev

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