Pinned Repositories
bcbb
Incubator for useful bioinformatics code, primarily in Python and R
bcbio-nextgen
Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
COSMOS2
Python Workflow and Pipeline Management System
cromwell
Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments
dna-seq-gatk-variant-calling
This Snakemake pipeline implements the GATK best-practices workflow
flask-admin
Simple and extensible administrative interface framework for Flask
hla-genotyper
HLA-Genotyper is a python software tool to call 4-digit HLA genotypes from RNA and DNA sequencing data stored in bam files.
HTSeq-Hadoop
MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
networkx
Official NetworkX source code repository.
vamst's Repositories
vamst/bcbb
Incubator for useful bioinformatics code, primarily in Python and R
vamst/bcbio-nextgen
Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
vamst/COSMOS2
Python Workflow and Pipeline Management System
vamst/cromwell
Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments
vamst/dna-seq-gatk-variant-calling
This Snakemake pipeline implements the GATK best-practices workflow
vamst/flask-admin
Simple and extensible administrative interface framework for Flask
vamst/hla-genotyper
HLA-Genotyper is a python software tool to call 4-digit HLA genotypes from RNA and DNA sequencing data stored in bam files.
vamst/HTSeq-Hadoop
vamst/MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
vamst/networkx
Official NetworkX source code repository.
vamst/python-pdfkit
Wkhtmltopdf python wrapper to convert html to pdf
vamst/sccaf
Single-Cell Clustering Assessment Framework
vamst/seurat
R toolkit for single cell genomics
vamst/somaticseq
An ensemble approach to accurately detect somatic mutations using SomaticSeq