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 đ
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/hisat2
Graph-based alignment (Hierarchical Graph FM index)
mr-c/smart_open
Utils for streaming large files (S3, HDFS, gzip, bz2...)
mr-c/black
The uncompromising Python code formatter
mr-c/Boxedwine
mr-c/bx-python
Tools for manipulating biological data, particularly multiple sequence alignments
mr-c/cwlScala
mr-c/dipy
DIPY is the paragon 3D/4D+ imaging library in Python. Contains generic methods for spatial normalization, signal processing, machine learning, statistical analysis and visualization of medical images. Additionally, it contains specialized methods for computational anatomy including diffusion, perfusion and structural imaging.
mr-c/dockstore-tool-md5sum
A very simple tool that just performs an md5sum
mr-c/emscripten
Emscripten: An LLVM-to-WebAssembly Compiler
mr-c/freebayes
Bayesian haplotype-based genetic polymorphism discovery and genotyping.
mr-c/galaxy
Data intensive biology for everyone.
mr-c/invesalius3
3D medical imaging reconstruction software
mr-c/macsyfinder
MacSyFinder - Detection of macromolecular systems in protein datasets using systems modelling and similarity search.
mr-c/maffilter
The MafFilter genome alignment processor
mr-c/mypy
Optional static typing for Python
mr-c/nbsphinx
:ledger: Sphinx source parser for Jupyter notebooks
mr-c/nfdi4plants.knowledgebase
This is the source repo for the nfdi4plants knowledge base webpage.
mr-c/PyCorrFit
data analysis and fitting software for fluorescence correlation spectroscopy (FCS)
mr-c/rdflib
RDFLib is a Python library for working with RDF, a simple yet powerful language for representing information.
mr-c/renske_cwlprov_analysis_manuscript
mr-c/rhdf5
Package providing an interface between HDF5 and R
mr-c/schema-salad-feedstock
A conda-smithy repository for schema-salad.
mr-c/scran
Clone of the Bioconductor repository for the scran package.
mr-c/signposting-chrome-extension
Chrome browser extensions to report the existence of signposting.org links in HTTP/HTML headers
mr-c/simde
Implementations of SIMD instruction sets for systems which don't natively support them.
mr-c/stk-code
The code base of supertuxkart
mr-c/surge
Synthesizer plug-in (previously released as Vember Audio Surge)
mr-c/vsearch
Versatile open-source tool for microbiome analysis
mr-c/wabt
The WebAssembly Binary Toolkit
mr-c/workflow-execution-schemas