Pinned Repositories
cwl-airflow
Python package to extend Airflow functionality with CWL1.1 support
sc-seq-analysis
CWL toolkit for single-cell sequencing data analysis
workflows
Community maintained workflows & tools (with examples)
airflow-guides
Guides to get up and running with Airflow
altanalyze3
altanalyze3_data
Test data for altanalyze3
Anchor
ansible-cwl
Deploy various implementations of CWL
circos
Build circos plots
altanalyze3
michael-kotliar's Repositories
michael-kotliar/altanalyze3
michael-kotliar/altanalyze3_data
Test data for altanalyze3
michael-kotliar/azimuth
A Shiny web app for mapping datasets using Seurat v4
michael-kotliar/bamsplice
INPUT: sam, bam, gff, gtf, tab-delimited table annotations
michael-kotliar/bio-cwl-tools
michael-kotliar/cellxgene-gateway
Cellxgene Gateway allows you to use the Cellxgene Server provided by the Chan Zuckerberg Institute (https://github.com/chanzuckerberg/cellxgene) with multiple datasets.
michael-kotliar/cellxgene_VIP
Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey and dual-gene plot in high-resolution SVG/PNG format. It also performs differential gene expression analysis and provides a Command Line Interface (CLI) for advanced users to perform analysis using python and R.
michael-kotliar/cwl-patterns
Patterns commonly encountered when writing CWL workflows
michael-kotliar/cwltool
Common Workflow Language reference implementation
michael-kotliar/fuzzdb
Dictionary of attack patterns and primitives for black-box application fault injection and resource discovery.
michael-kotliar/GFPGAN
GFPGAN aims at developing Practical Algorithms for Real-world Face Restoration.
michael-kotliar/GSEApy
Gene Set Enrichment Analysis in Python
michael-kotliar/janis-core
Core python modules for Janis Pipeline workflow assistant
michael-kotliar/job-generator
Job generator for MiraldiLab workflows
michael-kotliar/kb_python
A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing
michael-kotliar/MAnorm
A robust model for quantitative comparison of ChIP-Seq data sets.
michael-kotliar/mergebams
Command line tool for merging single cell rna-sequencing bams with intelligent tag preservation
michael-kotliar/mixcr
michael-kotliar/morpheus.R
R interface to morpheus.js heatmap widget
michael-kotliar/rabbitmq_python_examples
To test RabbitMQ
michael-kotliar/saber
michael-kotliar/satellite-cluster-api
an API to replace airflow for cluster integration in satellites
michael-kotliar/sc-seq-analysis-wiki-data
Images for sc-seq-analysis repository
michael-kotliar/schema_salad
Semantic Annotations for Linked Avro Data
michael-kotliar/scProportionTest
michael-kotliar/scTriangulate
scTriangulate is a Python package to mix-and-match conflicting clustering results in single cell analysis and generate reconciled clustering solutions
michael-kotliar/souporcell
Clustering scRNAseq by genotypes
michael-kotliar/toil
A scalable, efficient, cross-platform (Linux/macOS) and easy-to-use workflow engine in pure Python.
michael-kotliar/ToolJig
ToolJig: An app for building simplified Common Workflow Language tool descriptions
michael-kotliar/workflows
BioWardrobe's CWL files