msk-access / nucleo

Workflow that creates all the BAM files for the cfDNA assay based FASTQ file at MSK

description
Workflow that creates all the bam files for the MSK-ACCESS fastq file

Nucleo: FASTQ to MSK-ACCESS BAM's Generation

• Free software: Apache Software License 2.0
• Documentation: https://msk-access.gitbook.io/nucleo

Features

Given a pair-end fastq file generate collapsed fastq and standard, unfiltered, duplex and simplex Binary Alignment File

Installation

Clone the repository:

git clone --depth 50 https://github.com/msk-access/nucleo.git

Credits

• CMO cfDNA Informatics Team
• Cookiecutter: https://github.com/audreyr/cookiecutter
• audreyr/cookiecutter-pypackage: https://github.com/audreyr/cookiecutter-pypackage