Nextflow Modules
Showing module(s) with keyword "clean"
| Module | Kind | Keywords | Description |
|---|---|---|---|
| nf-core/bamaligncleaner | Process | bam clean align | removes unused references from header of sorted BAM/CRAM files. |
| nf-core/evigene/tr2aacds | Process | genomics transcript assembly clean polish filter redundant duplicate | Uses evigene/scripts/prot/tr2aacds.pl to filter a transcript assembly |
| nf-core/fastq_fetch_clean_hostile | Workflow | hostile decontamination human removal download host removal clean | Downloads required reference genomes for hostile and removes host reads from short-read FASTQ sequencing files |
| nf-core/gatk4/cleansam | Process | clean bam gatk sam clipping | Cleans the provided BAM, soft-clipping beyond-end-of-reference alignments and setting MAPQ to 0 for unmapped reads |
| nf-core/hostile/clean | Process | hostile decontamination human removal host removal clean | Removes host reads from short- and long-read FASTQ sequencing files |
| nf-core/octopusv/clean | Process | vcf sv structural-variants clean harmonization | Clean broken VCF/SVCF files using OctopuSV clean |
| nf-core/picard/cleansam | Process | clean bam picard sam clipping | Cleans the provided BAM, soft-clipping beyond-end-of-reference alignments and setting MAPQ to 0 for unmapped reads |