Available Pipelines
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6 sanger-tol/curationpretext
A Nextflow DSL2 pipeline for pretext generation in curation
Version 1.0.1 Published 1 month ago
24 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 2.0.0 Published 1 month ago
11 sanger-tol/readmapping
Nextflow DSL2 pipeline to align short and long reads to genome assembly. This workflow is part of the Tree of Life production suite.
Version 1.3.1 Published 2 months 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 0.6.0 Published 2 months ago
23 sanger-tol/treeval
curation genome-alignment genome-assembly genomics quality-control synteny
Pipelines for the production of Treeval data
Version 1.1.1 Published 5 months ago
1 sanger-tol/ensemblgenedownload
download gene-annotation genomics indexing
Nextflow DSL2 pipeline to download gene annotations from Ensembl.
Version 2.0.0 Published 6 months ago
1 sanger-tol/ensemblrepeatdownload
Nextflow DSL2 pipeline to download repeat annotations from Ensembl.
Version 2.0.0 Published 6 months ago
1 sanger-tol/insdcdownload
Nextflow DSL2 pipeline to download assemblies from INSDC.
Version 2.0.0 Published 6 months ago
3 sanger-tol/variantcalling
alignment genomics variant-calling
Nextflow DSL2 pipeline to call variants on long read alignment.
Version 1.1.3 Published 6 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 1.0.0 Published 2 years ago
4 sanger-tol/ascc
A Nextflow DSL2 pipeline for the identification of cobiont and contaminating sequences using fasta and pacbio data.
No releases yet
sanger-tol/genealignment
An NF-core pipeline to alignment genesets against a given reference genome.
No releases yet
1 sanger-tol/longreadmag
No releases yet
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