Pinned Repositories
bcbb
Incubator for useful bioinformatics code, primarily in Python and R
bcbio-conda
Deprecated conda recipes for bcbio python code and dependencies -- migrated to bioconda
bcbio.prioritize
Prioritize small variants, structural variants and coverage based on biological inputs
bcbio.variation
Toolkit to analyze genomic variation data, built on the GATK with Clojure
biosqlweb
BioSQL web
clj-blend
Clojure library for interacting with Galaxy, CloudMan, and BioCloudCentral, built on blend4j
cloudbiolinux
CloudBioLinux: configure virtual (or real) machines with tools for biological analyses
homebrew-cbl
Homebrew repository for CloudBioLinux: incubator for formulas to end up in homebrew-science
o8
Genetic changes we can believe in: a web based tool for variant visualization and analysis
r-var
Exploring our genomic variability
chapmanb's Repositories
chapmanb/bcbb
Incubator for useful bioinformatics code, primarily in Python and R
chapmanb/cloudbiolinux
CloudBioLinux: configure virtual (or real) machines with tools for biological analyses
chapmanb/clj-blend
Clojure library for interacting with Galaxy, CloudMan, and BioCloudCentral, built on blend4j
chapmanb/bcbio.prioritize
Prioritize small variants, structural variants and coverage based on biological inputs
chapmanb/dotfiles
~chapmanb dotfile organization for backup and sychronization
chapmanb/bcbio.run
Idempotent, transactional runs of external command line programs
chapmanb/zmk-34key-split
chapmanb/MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
chapmanb/In-depth-NGS-Data-Analysis-Course
Materials for 12-day course on analyzing RNA-Seq, ChIP-Seq and variant calling data.
chapmanb/Platypus
Platypus Variant Caller
chapmanb/zmk-architeuthis-dux
ZMK keyboard firmware shield for Architeuthis Dux
chapmanb/arvados
An open source platform for managing and analyzing biomedical big data
chapmanb/bcc2020.github.io
Website for #BCC2020
chapmanb/bioconda-recipes
Conda recipes for the bioconda channel.
chapmanb/cnvkit
Copy number variant detection from targeted DNA sequencing
chapmanb/DKFZBiasFilter
chapmanb/dx-cwl
Import and run CWL workflows on DNAnexus (alpha)
chapmanb/galaxy-hub
Galaxy Community Hub
chapmanb/mirtop
command lines tool to annotate miRNAs with a standard mirna/isomir naming
chapmanb/peddy
genotype :: ped correspondence check, ancestry check, sex check. directly, quickly on VCF
chapmanb/PureCN
Copy number calling and variant classification using targeted short read sequencing
chapmanb/sbg-cwl-runner
A CWL Runner for SBG platform
chapmanb/Seq2C
chapmanb/seqcluster
small RNA analysis from NGS data
chapmanb/smoove
structural variant calling and genotyping with existing tools, but, smoothly.
chapmanb/staged-recipes
A place to submit conda recipes before they become fully fledged conda-forge feedstocks
chapmanb/TitanCNA
Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer
chapmanb/truvari
SVBenchmarkingTool
chapmanb/VarDictJava
VarDict Java port
chapmanb/workflow-service
Implementation of the GA4GH Workflow Execution Service, a REST service for running workflows