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Merge pull request #203 from mirpedrol/clonality-docs
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add docs for clonality classifier module
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mirpedrol authored Oct 2, 2024
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Expand Up @@ -34,6 +34,7 @@ The pipeline is built using [Nextflow](https://www.nextflow.io/) and processes d
- [Edits calling](#edits-calling)
- [CIGAR](#cigar) - Parse CIGAR to call edits
- [Output plots](#output-plots) - Results visualisation
- [Clonality classifier](#clonality-classifier) - Classify samples by clonality
- [MultiQC](#multiqc) - Aggregate report describing results and QC from the whole pipeline
- [Pipeline information](#pipeline-information) - Report metrics generated during the workflow execution

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</details>

### Clonality classifier

<details markdown="1">
<summary>Output files</summary>

- `*_edits_classified.csv`: Table containing the samples classified into Homologous WT, Homologous NHEJ and Heterologous NHEJ.

</details>

### Output plots

<details markdown="1">
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