Nicolas Vannieuwkerke's repositories
tools
Python package with helper tools for the nf-core community.
configs
Config files used to define parameters specific to compute environments at different Institutions
variantbenchmarking
A nextflow variant benchmarking pipeline - premature
bytesize-nft-bam
Repository that contains all the content used for the nft-bam bytesize of July 30th 2024
nf-co.re
Code and files for the main nf-core website.
nextflow_schema
A repository to host meta JSON schemas for Nextflow
plugins
Nextflow plugins index repository
nf-core-modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
nf-test-plugins
Repository for nf-test plugins
nf-ga4gh
GA4GH plugin for Nextflow
nextflow-demo
A demonstration on how to easily run a Nextflow pipeline and how easy it is to create one
pipeception
A small POC pipeline testing out how to run pipelines inside of another pipeline
python-scripts
A repository containing a collection of some useful small Python scripts I wrote
bioconda-recipes
Conda recipes for the bioconda channel.
testpipeline
A small example pipeline used to test new nf-core infrastructure and common code.
nextflow
A DSL for data-driven computational pipelines
nf-test-snippets
A collection of snippets to use for nf-test assertions
nf-cmgg-structural
Nextflow workflow for calling structural variants
website
Nextflow public web site
nf-validation
Params validation plugin for Nextflow pipelines
nf-validation-demo
A repository for demonstrating nf-validation
svync
A tool to standardize VCF files from structural variant callers
multi-package-containers
Testing building mulled containers for multi-requirement tools.
nf-dynamic-containers
A script to dynamically fetch conda/containers from bioconda/biocontainers for nextflow pipelines
nf-cmgg-configs
Nextflow config files
test-datasets
Test data to be used for automated testing with the nf-core pipelines
nf-cmgg-preprocessing
Preprocessing workflow for sequencing data at CMGG
WisecondorX
WisecondorX — An evolved WISECONDOR