kmfisch

kmfisch's Stars

• bioconda/bioconda-recipes

  Conda recipes for the bioconda channel.

  Language:Shell1.7k961.9k3.3k

• bcbio/bcbio-nextgen

  Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis

  Language:Python994863.1k353

• tanghaibao/goatools

  Python library to handle Gene Ontology (GO) terms

  Language:Python79623214209

• rasmusab/bayesian_first_aid

  Inside every classical test there is a Bayesian model trying to get out.

  Language:R326562340

• tiagoantao/bioinf-python

  Python for Bioinformatics

  Language:OpenEdge ABL249296105

• pygridtools/drmaa-python

  Python wrapper around the C DRMAA library.

  Language:Python108115428

• ucsd-ccbb/visJS2jupyter

  visJS2jupyter is a tool to bring the interactivity of networks created with vis.js into jupyter notebook cells

  Language:Jupyter Notebook78212317

• ucsd-ccbb/VAPr

  VAPr: A Python package for NoSQL variant data storage, annotation and prioritization

  Language:Python3413243

• andersen-lab/bjorn

  Language:Python2110224

• konradjk/stormseq

  STORMSeq: Scalable Tools for Open-source Read Mapping

  Language:JavaScript19737

• bcgsc/abyss-2.0-giab

  :baby_bottle: Assemble the Genome in a Bottle sequencing data

  Language:Makefile1033

• ucsd-ccbb/C-VIEW

  This software implements a high-throughput data processing pipeline to identify and charaterize SARS-CoV-2 variant sequences in specimens from COVID-19 positive hosts or environments.

  Language:Python981272

• ucsd-ccbb/cirrus-ngs

  Language:Python811243

• Epigenomics-Screw/Screw

  SCREW: A Reproducible Workflow for Single-Cell Epigenomics

  Language:R710297

• ucsd-ccbb/gsia

  Gene Set Information Analysis

  Language:R7441

• ucsd-ccbb/jupyter-pathway

  Canonical pathway visualization and analysis

  Language:Jupyter Notebook51202

• ucsd-ccbb/mali-dual-crispr-pipeline

  This repository contains code for the dual-CRISPR screen analysis pipeline developed to analyze results from the dual-CRISPR screening system set up by the labs of Dr. Prashant Mali and Dr. Trey Ideker. The software is developed by Amanda Birmingham and Roman Sasik of the Center for Computational Biology and Bioinformatics at the University of California, San Diego.

  Language:Python46102

• adammaikai/OmicsPipe2.0

  Language:Python33

• adammaikai/PipeMaster

  Employs the Omics Pipe framework for automated DNA/RNA-seq variant calling and copy number analysis.

  Language:R3202

• ucsd-ccbb/qiimp

  Web application to collect metadata specifications from an experimenter and produce metadata input files with appropriate constraints

  Language:Python331747

• ucsd-ccbb/MPN_atlas_methods

  Source code for methods for A Dynamic Pre-Leukemia Stem Cell Atlas of Myeloproliferative Neoplasm Evolution

  Language:Jupyter Notebook2200

• adammaikai/GeneFreq

  Shiny app for exploring distributions of genetic variants in cancer

  Language:R1101

• meissnert/StarCluster-Plugins

  Language:Python1300

• vcorey98/omics_pipe_platypus

  Language:Python130