Nextflow Modules
Showing module(s) with keyword "cnvkit"
| Module | Keywords | Description |
|---|---|---|
| nf-core/cnvkit/batch | cnvkit bam fasta copy number | Copy number variant detection from high-throughput sequencing data |
| nf-core/cnvkit/call | cnvkit bam fasta copy number | Given segmented log2 ratio estimates (.cns), derive each segment’s absolute integer copy number |
| nf-core/cnvkit/coverage | cnvkit coverage BAM CRAM bedGraph read depth genomics | Calculate coverage in the given regions from BAM/CRAM or bedGraph files read depths. |
| nf-core/cnvkit/export | cnvkit copy number export | Convert copy number ratio tables (.cnr files) or segments (.cns) to another format. |
| nf-core/cnvkit/fix | cnvkit fix cnn GC content bias RepeatMasker genomics | Combine the uncorrected target and antitarget coverage tables (.cnn) and correct for biases in regional coverage and GC content, according to the given reference. |
| nf-core/cnvkit/genemetrics | cnvkit bam fasta copy number | Copy number variant detection from high-throughput sequencing data |
| nf-core/cnvkit/reference | cnvkit reference cnv copy number | Compile a coverage reference from the given files (normal samples). |
| nf-core/cnvkit/target | cnvkit target cnv copy number | Transform bait intervals into targets more suitable for CNVkit. |