Pinned Repositories
WisecondorX
WisecondorX — An evolved WISECONDOR
bcbio-nextgen
Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
bcbio_docker
Automated Docker builds for bcbio
besolverd
Small python (2.7) script which encapsulates mosdepth, bedtools and rtg tools for our benchmarking.
bioconda-recipes
Conda recipes for the bioconda channel.
cloudbiolinux
CloudBioLinux: configure virtual (or real) machines with tools for biological analyses
matthdsm's Repositories
matthdsm/bcbio-nextgen
Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
matthdsm/bcbio_docker
Automated Docker builds for bcbio
matthdsm/besolverd
Small python (2.7) script which encapsulates mosdepth, bedtools and rtg tools for our benchmarking.
matthdsm/bioconda-recipes
Conda recipes for the bioconda channel.
matthdsm/cloudbiolinux
CloudBioLinux: configure virtual (or real) machines with tools for biological analyses
matthdsm/conda-forge-staged-recipes
A place to submit conda recipes before they become fully fledged conda-forge feedstocks
matthdsm/CTAT-SPLICING
detection of cancer splicing aberrations
matthdsm/eido-feedstock
A conda-smithy repository for eido.
matthdsm/elprep
elPrep: a high-performance tool for preparing sequence alignment/map files in sequencing pipelines.
matthdsm/Hopla-go
Streamlined duo/trio analysis and pedigree haplotyping: from VCF to interactive HTML
matthdsm/igv.js
Lightweight html5 version of the Integrative Genomics Viewer
matthdsm/janis-bioinformatics
Repository of bioinformatics tools for the pipelines module
matthdsm/loginpass
Social connections powered by Authlib.
matthdsm/MaxEntScan
MaxEntScan source code, copied from http://genes.mit.edu/burgelab/maxent/Xmaxentscan_scoreseq.html
matthdsm/meinheld-gunicorn-docker
Docker image with Meinheld managed by Gunicorn for high-performance WSGI (Flask, Django, etc) web applications in Python 3.7 and 3.6 with performance auto-tuning. Optionally with Alpine Linux.
matthdsm/mulled
Mulled - Automatized Containerized Software Repository
matthdsm/multi-package-containers
Testing building mulled containers for multi-requirement tools.
matthdsm/MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
matthdsm/MultiQC_TestData
Test data for MultiQC. See https://github.com/ewels/MultiQC
matthdsm/nextflow
A DSL for data-driven computational pipelines
matthdsm/nf-core-demultiplex
UNDER CONSTRUCTION: Demultiplexing pipeline for Illumina sequencing data
matthdsm/nf-core-modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
matthdsm/nf-core-saliva
matthdsm/nf-core-tools
Python package with helper tools for the nf-core community.
matthdsm/peppy-feedstock
A conda-smithy repository for peppy.
matthdsm/ubiquerg-feedstock
A conda-smithy repository for ubiquerg.
matthdsm/uvicorn-gunicorn-docker
Docker image with Uvicorn managed by Gunicorn for high-performance web applications in Python 3.7 and 3.6 with performance auto-tuning. Optionally with Alpine Linux.
matthdsm/vcf2db
create a gemini-compatible database from a VCF
matthdsm/vcfgo
a golang library to read, write and manipulate files in the variant call format.