Pinned Repositories
actions-gh-pages
GitHub Actions for GitHub Pages 🚀 Deploy static files and publish your site easily. Static-Site-Generators-friendly.
ConfigArgParse
A drop-in replacement for argparse that allows options to also be set via config files and/or environment variables.
ExpansionHunter
A tool for estimating repeat sizes
hail-scripts
hail scripts from misc. analyses
hail-utils
misc. hail utils
pypez
simple pipelines in python
REViewer
A tool for visualizing alignments of reads in regions containing tandem repeats
rnaseq-viewer
SpliceAI
A deep learning-based tool to identify splice variants
wdl_pipelines
WDL pipelines to be run on cromwell (https://github.com/broadinstitute/cromwell)
bw2's Repositories
bw2/ConfigArgParse
A drop-in replacement for argparse that allows options to also be set via config files and/or environment variables.
bw2/ExpansionHunter
A tool for estimating repeat sizes
bw2/hail-utils
misc. hail utils
bw2/SpliceAI
A deep learning-based tool to identify splice variants
bw2/hail-scripts
hail scripts from misc. analyses
bw2/REViewer
A tool for visualizing alignments of reads in regions containing tandem repeats
bw2/rnaseq-viewer
bw2/actions-gh-pages
GitHub Actions for GitHub Pages 🚀 Deploy static files and publish your site easily. Static-Site-Generators-friendly.
bw2/annotation-utils
misc. python utilities
bw2/bin-utils
Misc. command line utils
bw2/bw2.github.io
bw2/DeepTrio
DeepTrio tests
bw2/deepvariant
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
bw2/FRASER
bw2/GangSTR
A tool for profiling long STRs from short reads
bw2/hail
Scalable genomic data analysis.
bw2/igv.js
Embeddable genomic visualization component based on the Integrative Genomics Viewer
bw2/impute_sample_metadata
Hail Batch pipelines for imputing the reference genome version, sample type, etc. from BAM or CRAM files.
bw2/LIRICAL
LIkelihood Ratio Interpretation of Clinical AbnormaLities
bw2/MAPS
code for computing MAPS scores
bw2/pandas
Flexible and powerful data analysis / manipulation library for Python, providing labeled data structures similar to R data.frame objects, statistical functions, and much more
bw2/Pangolin
Pangolin is a deep-learning method for predicting splice site strengths.
bw2/perf
PERF is an Exhaustive Repeat Finder
bw2/phaser
phasing and Allele Specific Expression from RNA-seq
bw2/popSTR
PopSTR - A Population based microsatellite genotyper
bw2/process_profiler
Runs in the background and records telemetry on running processes and system resources. Designed for instrumenting jobs in compute clusters.
bw2/pyCircos
python Circos
bw2/sma_carrier_detection
bw2/step-pipeline
This library is a thin layer over Hail Batch that adds features like skipping steps whose output files have already been generated, additional options for localizing files, notifications on pipeline completion, etc.
bw2/STRetch
Method for detecting STR expansions from short-read sequencing data