mr-c
@common-workflow-language co-founder & CWL Project Lead. Debian Developer volunteer for the Debian-Med (bioinformatics) team. #SciWorkflows #FreeOpenStandards
@common-workflow-language Berlin, Germany
Pinned Repositories
common-workflow-language
Repository for the CWL standards. Use https://cwl.discourse.group/ for support 😊
cwlprov
Profile for provenance research object of a CWL workflow run
cwltool
Common Workflow Language reference implementation
schema_salad
Semantic Annotations for Linked Avro Data
bioapi-linux
This is the reference implementation of BioAPI 1.1 for Linux. Note for bioinformaticians: hilariously I used to work in biometrics. This will be of no use to you and is essentially unmaintained. Cheers!
common-workflow-language
Repository for CWL Specfications
CWL-Quick-Start
Short demo of a cwl workflow
hive-cwl-examples
misc
shouldacite
Should you cite this software?
mr-c's Repositories
mr-c/black
The uncompromising Python code formatter
mr-c/bpp-core
Bio++ Core Library
mr-c/bpp-phyl
Bio++ Phylogenetic Library
mr-c/bpp-phyl-omics
Bio++ Phylogenetic Omics Library
mr-c/bpp-popgen
Bio++ Population Genetics Library
mr-c/bpp-qt
Bio++ Qt Graphic Library
mr-c/bpp-raa
Bio++ Remote Acnuc Access Library
mr-c/bpp-seq
Bio++ Sequence Library
mr-c/bpp-seq-omics
Bio++ Sequence Omics Library
mr-c/bppphyview
Bio++ Phylogeny Viewer
mr-c/bppsuite
Bio++ Program Suite
mr-c/cwltest-feedstock
A conda-smithy repository for cwltest.
mr-c/dockstore-tool-md5sum
A very simple tool that just performs an md5sum
mr-c/freebayes
Bayesian haplotype-based genetic polymorphism discovery and genotyping.
mr-c/getdata
The GetData Project is the reference implementation of the Dirfile Standards, a filesystem-based, column-oriented database format for time-ordered binary data.
mr-c/gffutils
GFF and GTF file manipulation and interconversion
mr-c/hickle
a HDF5-based python pickle replacement
mr-c/ifcplusplus
IfcPlusPlus is an open source C++ class model, as well as a reader and writer for IFC files in STEP format. Features: Easy and efficient memory management using smart pointers. Parallel reader for very fast parsing on multi-core CPU's. Additionally, there's a simple IFC viewer application, using Qt and OpenSceneGraph. It can be used as starting poi
mr-c/imbalanced-learn
A Python Package to Tackle the Curse of Imbalanced Datasets in Machine Learning
mr-c/Jellyfish
A fast multi-threaded k-mer counter
mr-c/joblib
Computing with Python functions.
mr-c/kitty
Cross-platform, fast, feature-rich, GPU based terminal
mr-c/maffilter
The MafFilter genome alignment processor
mr-c/minimap2
A versatile pairwise aligner for genomic and spliced nucleotide sequences
mr-c/nbsphinx
:ledger: Sphinx source parser for Jupyter notebooks
mr-c/newsletter
repo for OBF community newsletter updates
mr-c/phylonium
♥ Fast and Accurate Estimation of Evolutionary Distances
mr-c/physamp
Phylogenetic Sampling and Optimization of sequence alignments
mr-c/renske_cwlprov_analysis_manuscript
mr-c/visNetwork
R package, using vis.js library for network visualization