Nextflow Modules
Showing module(s) with keyword "merge"
| Module | Keywords | Description |
|---|---|---|
| nf-core/agat/spmergeannotations | genomics gff merge combine | This script merge different gff annotation files in one. It uses the AGAT parser that takes care of duplicated names and fixes other oddities met in those files. |
| nf-core/atlas/splitmerge | split merge bam read group | split single end read groups by length and merge paired end reads |
| nf-core/bcftools/merge | variant calling merge VCF | Merge VCF files |
| nf-core/bedtools/merge | bed merge bedtools overlapped bed | combines overlapping or “book-ended” features in an interval file into a single feature which spans all of the combined features. |
| nf-core/biobambam/bammerge | merge bam sorted | Merge a list of sorted bam files |
| nf-core/concoct/extractfastabins | contigs fragment mags binning fasta cut cut up bins merge | Creates a FASTA file for each new cluster assigned by CONCOCT |
| nf-core/concoct/mergecutupclustering | contigs fragment mags binning fasta cut cut up merge | Merge consecutive parts of the original contigs original cut up by cut_up_fasta.py |
| nf-core/cooler/merge | merge cooler hic | Merge multiple coolers with identical axes |
| nf-core/custom/rsemmergecounts | rsem merge counts gene expression | Merge per-sample RSEM results into wide and long format TSV matrices |
| nf-core/elprep/merge | bam sam merge | Merge split bam/sam chunks in one file |
| nf-core/expansionhunterdenovo/merge | expansionhunterdenovo merge str | Merge STR profiles into a multi-sample STR profile |
| nf-core/fastk/merge | merge k-mer histogram fastk | A tool to merge FastK histograms |
| nf-core/gatk4/mergebamalignment | alignment bam gatk4 merge mergebamalignment | Merge unmapped with mapped BAM files |
| nf-core/gatk4/mergemutectstats | gatk4 merge mutect2 mutectstats | Merges mutect2 stats generated on different intervals/regions |
| nf-core/gatk4/mergevcfs | gatk4 merge vcf | Merges several vcf files |
| nf-core/gatk4/splitncigarreads | gatk4 merge vcf | Splits reads that contain Ns in their cigar string |
| nf-core/gffcompare | transcripts gtf merge compare | Compare, merge, annotate and estimate accuracy of generated gtf files |
| nf-core/glnexus | merge gvcf joint-variant-calling | merge gVCF files and perform joint variant calling |
| nf-core/metaphlan3/mergemetaphlantables | metagenomics classification merge table profiles | Merges output abundance tables from MetaPhlAn3 |
| nf-core/metaphlan/mergemetaphlantables | metagenomics classification merge table profiles | Merges output abundance tables from MetaPhlAn4 |