Description

Calculate Jaccard statistic b/w two feature files.

Input

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, single_end

]

input_a (file)

VCF,GFF or BED file to use with the -a option

*.{vcf,vcf.gz,bed,bed.gz,gff}

input_b (file)

VCF,GFF or BED file to use with the -b option

*.{vcf,vcf.gz,bed,bed.gz,gff}

meta2 (map)

Groovy Map containing genome file information
e.g. [ id:‘test’, single_end

]

genome_file (file)

A file containing all the contigs of the genome used to create the input files

*.{txt,sizes,fai}

Output

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, single_end

]

versions (file)

File containing software versions

versions.yml

tsv (file)

TSV file containing the results

*.tsv
author
Github user nvnieuwk
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Tools

bedtools
MIT

A set of tools for genomic analysis tasks, specifically enabling genome arithmetic (merge, count, complement) on various file types.

bedtools.readthedocs.io/en/latest/content/tools/intersect