Nextflow Modules
Showing module(s) with keyword "check"
| Module | Keywords | Description |
|---|---|---|
| nf-core/htsnimtools/vcfcheck | validation check variation | This tools takes a background VCF, such as gnomad, that has full genome (though in some cases, users will instead want whole exome) coverage and uses that as an expectation of variants. |
| nf-core/samtools/quickcheck | check quickcheck sam bam cram | Quickly check that input files appear to be intact. Checks that beginning of the file contains a valid header (all formats) containing at least one target sequence and then seeks to the end of the file and checks that an end-of-file (EOF) is present and intact (BAM and CRAM only). Alignment records are not checked. The quickcheck module returns a non-zero EXIT_CODE if any input files don't have a valid header or are missing an EOF block. Otherwise EXIT_CODE is zero. |
| nf-core/seqfu/check | check seqfu fastq | Evaluates the integrity of DNA FASTQ files |