Workflows

What is a Workflow?
3 Workflows visible to you, out of a total of 3
Work-in-progress

AnnoAudit - Annotation Auditor

AnnoAudit is a robust Nextflow pipeline designed to evaluate the quality of genomic annotations through a multifaceted approach.

Overview of the workflow

The workflow assess the annotation quality based on different criteria:

  • Protein evidence support
  • RNASeq evidence support
  • Statistics of the predictions (i.e., gene length, exon number, etc.)
  • Ortholog analysis (BUSCO, OMArk)

Input data

  • Reference genome genome.[.fna, .fa, .fasta]
  • Annotation ...

Type: Nextflow

Creator: Phuong Doan

Submitter: Phuong Doan

DOI: 10.48546/workflowhub.workflow.1330.1

Work-in-progress

GALOP - Genome Assembly using Long reads Pipeline

This repository contains an exact copy of the standard Genoscope long reads assembly pipeline.

At the moment, this is not intended for users to download as it uses grid submission commands that will only work at Genoscope. As time goes on, we intend to make this pipeline available to a broader audience. However, genome assembly and polishing commands are accessible in the lib/assembly.py and lib/polishing.py files.

galop.py -h 
Mandatory
...
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