Pinned Repositories
adam-ibs
Ports the IBS/MDS/IBD functionality of Plink to Spark / ADAM
AdmixTools
Tools test whether admixture occurred and more
awesome-single-cell
List of software packages for single-cell data analysis, including RNA-seq, ATAC-seq, etc.
CAW
Cancer Analysis Workflow prototype
cbioportal
labs
Rmd source files for the HarvardX series PH525x
svlib
Toolkit for extracting SVs from long sequences and benchmarking variant callers
vg
tools for working with variation graphs
snashraf's Repositories
snashraf/analysis-workflows
MGI's Analysis Workflows and Pipelines managed by the BGA group.
snashraf/Awesome-Bioinformatics
A curated list of awesome Bioinformatics libraries and software.
snashraf/Awesome-Bioinformatics-Benchmarks
A curated list of bioinformatics bench-marking papers and resources.
snashraf/awesome-microbes
List of computational resources for analyzing microbial sequencing data.
snashraf/CleanSV
snashraf/cloudtools
Scripts for working with Google Cloud Dataproc service
snashraf/clustergrammer
An interactive heatmap visualization built using D3.js
snashraf/codehelp
Code tutorials
snashraf/CovGen
Creates a target specific exome_full192.coverage.txt file required by MutSig
snashraf/decart_linear_algebra_2019
snashraf/gene.iobio
An iobio app for examining gene variants
snashraf/genomepy
Download genomes the easy way.
snashraf/gggenes
➡️️➡️️⬅️️➡️️ Draw gene maps in ggplot2
snashraf/gnomad_qc
snashraf/GREEN-VARAN
Annotate non-coding regulatory vars using our GREEN-DB, prediction scores, conservation and pop AF
snashraf/hmmlearn
Hidden Markov Models in Python, with scikit-learn like API
snashraf/igv-classifier
snashraf/In-depth-NGS-Data-Analysis-Course
Materials for 12-day course on analyzing RNA-Seq, ChIP-Seq and variant calling data.
snashraf/INS_assembly
snashraf/InterVar
A bioinformatics software tool for clinical interpretation of genetic variants by the 2015 ACMG-AMP guideline
snashraf/lemon-tree
Module Network Inference software
snashraf/MetabolomicsTools
snashraf/OpenPBTA-analysis
The analysis repository for the Open Pediatric Brain Tumor Atlas Project
snashraf/pVACtools
snashraf/quant-genetics-webinars
Quantitative Genetics Tools for Mapping Trait Variation to Mechanisms, Therapeutics, and Interventions - Webinar Series
snashraf/sllobs-biostats
snashraf/snakepipes
Customizable workflows based on snakemake and python for the analysis of NGS data
snashraf/stix
Structural Variant Index
snashraf/toolshed
python stuff I use
snashraf/VariantBam
Filtering and profiling of next-generational sequencing data using region-specific rules