4 sanger-tol/ascc

genomics

A Nextflow DSL2 pipeline for the identification of cobiont and contaminating sequences using fasta and pacbio data.

Version 0.3.0   Published 4 days ago

6 sanger-tol/curationpretext

genomics hic

A Nextflow DSL2 pipeline for pretext generation in curation

Version 1.4.0   Published 4 weeks ago

24 sanger-tol/treeval

curation genome-alignment genome-assembly genomics quality-control synteny

Pipelines for the production of Treeval data

Version 1.3.0   Published 4 weeks ago

1 sanger-tol/metagenomeassembly

Version 1.1.0   Published 4 weeks ago

11 sanger-tol/blobtoolkit

blobtools decontamination genomehubs genomics

Nextflow DSL2 pipeline to generate data for a BlobToolKit analysis. This workflow is part of the Tree of Life production suite.

Version 0.7.1   Published 2 months ago

26 sanger-tol/genomenote

genomics hic publications statistics

Nextflow DSL2 pipeline to generate a Genome Note, including assembly statistics, quality metrics, and Hi-C contact maps. This workflow is part of the Tree of Life production suite.

Version 2.1.1   Published 2 months ago

13 sanger-tol/readmapping

genomics read-alignment

Nextflow DSL2 pipeline to align short and long reads to genome assembly. This workflow is part of the Tree of Life production suite.

Version 1.3.4   Published 2 months ago

7 sanger-tol/variantcalling

alignment genomics variant-calling

Nextflow DSL2 pipeline to call variants on long read alignment.

Version 1.1.6   Published 3 months ago

sanger-tol/ear

genomics reporting-tool

ERGA Assembly Report pipeline

Version 0.6.2   Published 4 months ago

2 sanger-tol/sequencecomposition

genomics kmer-frequency-count running-average shannon-entropy

Nextflow DSL2 pipeline to extract statistics from a genome about its sequence composition

Version 1.1.0   Published 5 months ago

1 sanger-tol/ensemblrepeatdownload

download formatting genomics

Nextflow DSL2 pipeline to download repeat annotations from Ensembl.

Version 2.0.1   Published 5 months ago

1 sanger-tol/ensemblgenedownload

download gene-annotation genomics indexing

Nextflow DSL2 pipeline to download gene annotations from Ensembl.

Version 2.0.2   Published 5 months ago

1 sanger-tol/insdcdownload

download genomics indexing

Nextflow DSL2 pipeline to download assemblies from INSDC.

Version 2.0.2   Published 5 months ago