Nextflow Modules
Showing module(s) with keyword "counts"
| Module | Keywords | Description |
|---|---|---|
| nf-core/cobiontid/kmercounter | cobiontid kmer counts npy fasta | A rust based tool based on Needletail's FASTA parser tallies k-mer counts for large sequencing rounds. Written with downstream processing with Tensorflow or numpy in mind. |
| nf-core/custom/rsemmergecounts | rsem merge counts gene expression | Merge per-sample RSEM results into wide and long format TSV matrices |
| nf-core/gatk4/determinegermlinecontigploidy | copy number counts determinegermlinecontigploidy gatk4 | Determines the baseline contig ploidy for germline samples given counts data |
| nf-core/samtools/flagstat | stats mapping counts bam sam cram | Counts the number of alignments in a BAM/CRAM/SAM file for each FLAG type |
| nf-core/samtools/idxstats | stats mapping counts chromosome bam sam cram | Reports alignment summary statistics for a BAM/CRAM/SAM file |
| nf-core/samtools/stats | statistics counts bam sam cram | Produces comprehensive statistics from SAM/BAM/CRAM file |
| nf-core/subread/featurecounts | counts fasta genome reference | Count reads that map to genomic features |