Nucleo: FASTQ to MSK-ACCESS BAM's Generation

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

Features

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

Clone the repository:

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

Name		Name	Last commit message	Last commit date
Latest commit History 276 Commits
.github		.github
bam_collapsing @ f49d5d4		bam_collapsing @ f49d5d4
command_line_tools @ 28551d5		command_line_tools @ 28551d5
docs		docs
nucleo		nucleo
subworkflows @ e6aa311		subworkflows @ e6aa311
tests		tests
uncollapsed_bam_generation @ e55c072		uncollapsed_bam_generation @ e55c072
.editorconfig		.editorconfig
.gitbook.yaml		.gitbook.yaml
.gitignore		.gitignore
.gitmodules		.gitmodules
.pyup.yml		.pyup.yml
.travis.yml		.travis.yml
LICENSE		LICENSE
MANIFEST.in		MANIFEST.in
Makefile		Makefile
README.md		README.md
SUMMARY.md		SUMMARY.md
example_inputs.yaml		example_inputs.yaml
fastq_to_bam.cwl		fastq_to_bam.cwl
install_data.sh		install_data.sh
nucleo.cwl		nucleo.cwl
requirements.txt		requirements.txt
setup.cfg		setup.cfg
setup.py		setup.py
tox.ini		tox.ini