Nextflow Modules
Showing module(s) with keyword "regions"
| Module | Kind | Keywords | Description |
|---|---|---|---|
| nf-core/bio2zarr/vcfpartition | Process | vcf bcf partition regions parallel genomics | Outputs a set of region strings that partition indexed VCF/BCF files for parallel processing. |
| nf-core/deeptools/computematrix | Process | genome regions scores matrix | calculates scores per genome regions for other deeptools plotting utilities |
| nf-core/deeptools/computematrixoperations | Process | genome regions genomics matrix | Modify computeMatrix output with computeMatrixOperations, e.g. filterStrand, filterValues, relabel, subset or sort. The subcommand is set with `ext.args`, its options with `ext.args2`. Subcommands that take several matrices (rbind, cbind) or write no matrix (info, dataRange) are not supported. |
| nf-core/ngsbits/bedannotategc | Process | gc bed regions | Annotates GC content fraction to regions in a BED file. |
| nf-core/ngsbits/bedcoverage | Process | bed coverage regions | Annotates a BED file with the average coverage of the regions from one or several BAM/CRAM file(s). |
| nf-core/picard/scatterintervalsbyns | Process | interval_list scatter regions | Writes an interval list created by splitting a reference at Ns.A Program for breaking up a reference into intervals of alternating regions of N and ACGT bases |
| nf-core/samtools/bedcov | Process | bedcov samtools coverage bed bam cram sam regions | reports coverage over regions in a supplied BED file |
| nf-core/tabix/tabix | Process | index tabix vcf extract regions | DEPRECATED. Use HTSLIB/BGZIPTABIX instead. Create a tabix index from a sorted bgzip TAB-delimited genome file, or extract regions from a bgzipped VCF file using an optional regions file. |