New module: nucleoatac

Is there an existing module for this?

• I have searched for the existing module

Is there an open PR for this?

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Further Information

Hi nf-core/modules team,

I would like to contribute a new module for NucleoATAC.

Component name:
nucleoatac/run

Tool:
NucleoATAC calls nucleosome positions, nucleosome-free regions and occupancy tracks from paired-end bulk ATAC-seq data.

Bioconda package:
bioconda::nucleoatac=1.0.0

BioContainer:
quay.io/biocontainers/nucleoatac:1.0.0--py310h3479294_0

The module takes a coordinate-sorted BAM, BAM index, BED regions, reference FASTA and FASTA index, and emits NucleoATAC BED/bedGraph outputs plus diagnostic files.

Local checks:

• nf-core modules lint nucleoatac/run --plain-text
• result: 52 passed, 0 warnings, 0 failed
• nf-test stub test with Docker passed

I am opening this issue to avoid duplicate work before submitting the PR.

Are you going to work on this?

• If I'm planning to work on this module, I added myself to the Assignees to facilitate tracking who is working on the module

Software requirements (conda)

# yaml-language-server: $schema=https://raw.githubusercontent.com/nf-core/modules/master/modules/environment-schema.json

channels:
  - conda-forge
  - bioconda

dependencies:
  - bioconda::nucleoatac=1.0.0

Start with the nf-core module conventions for the nucleoatac/run component, then review the listed inputs and NucleoATAC BED, bedGraph, and diagnostic outputs. Run the provided nf-test Docker stub and nf-core modules lint nucleoatac/run --plain-text; done means the checks pass for the new module.