Nextflow Modules
Showing module(s) with keyword "validation"
| Module | Kind | Keywords | Description |
|---|---|---|---|
| nf-core/falint | Process | fasta validation genome | A fasta linter/validator |
| nf-core/fastavalidator | Process | fasta validation genome | "Python C-extension for a simple validator for fasta files. The module emits the validated file or an error log upon validation failure." |
| nf-core/ferrohgvs/parse | Process | hgvs variant parse validation nomenclature | Parse and validate HGVS variant descriptions with ferro |
| nf-core/gffread | Process | gff conversion validation | Validate, filter, convert and perform various other operations on GFF files |
| nf-core/gt/gff3validator | Process | genome gff3 annotation validation | GenomeTools gt-gff3validator utility to strictly validate a GFF3 file |
| nf-core/happy/happy | Process | happy benchmark haplotype validation | Hap.py is a tool to compare diploid genotypes at haplotype level. Rather than comparing VCF records row by row, hap.py will generate and match alternate sequences in a superlocus. A superlocus is a small region of the genome (sized between 1 and around 1000 bp) that contains one or more variants. |
| nf-core/happy/sompy | Process | happy sompy benchmark haplotype validation somatic variants | Hap.py is a tool to compare diploid genotypes at haplotype level. som.py is a part of hap.py compares somatic variations. |
| nf-core/htsnimtools/vcfcheck | Process | 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/rtgtools/rocplot | Process | rtgtools rocplot validation vcf | Plot ROC curves from vcfeval ROC data files, either to an image, or an interactive GUI. The interactive GUI isn't possible for nextflow. |
| nf-core/samplesheetparser/validate | Process | illumina samplesheet validation demultiplexing bclconvert bcl2fastq genomics | Validate an Illumina SampleSheet.csv (V1 or V2) for index, adapter, and structural issues. Format is auto-detected. Exits 0 if valid, 1 if errors are found — causing the pipeline to fail early with a clear message rather than discovering demultiplexing problems downstream. |
| nf-core/shinyngs/validatefomcomponents | Process | expression features observations validation | validate consistency of feature and sample annotations with matrices and contrasts |
| nf-core/utils_nfschema_plugin | Workflow | validation JSON schema plugin parameters summary | Run nf-schema to validate parameters and create a summary of changed parameters |
| nf-core/utils_nfvalidation_plugin | Workflow | utility pipeline initialise validation | Use nf-validation to initiate and validate a pipeline |