rhshah Goto Github PK

impact-pipeline

Framework to process and call somatic variation from NGS dataset generated using MSK-IMPACT assay

impact-sv

Detection of Structural Variants Using Delly and Annotation using dRanger

jekyll-now

Build a Jekyll blog in minutes, without touching the command line.

jvarkit

Java utilities for Bioinformatics

lorca

Build cross-platform modern desktop apps in Go + HTML5

maftools

Summarize, Analyze and Visualize MAF files from TCGA or in house studies.

marianas

Software for processing molecular barcoding (UMI)-based NGS data

miscellaneous

Multiple DataProcessing scripts

mixclone_analysis

MixClone Analysis Wrapper

mutation_modelling

This repo has scripts that helps to generate features for modeling mutations

mutationalpatterns

R package for extracting and visualizing mutational patterns in base substitution catalogues

normalvsnormalanalysis

Scripts to do FalsePositive analysis with replicated normals

notifiers

The easy way to send notifications

oncoprintr

oneliners

Useful bash one-liners for bioinformatics.

pandashells

:panda_face: Bringing the python data stack to the shell prompt

peewee

a small, expressive orm -- supports postgresql, mysql and sqlite

pie

Precision Informatics engine (PIe)

presentations

Repository of all my public presentations

processed-pseudogenes

Look for processed pseudogenes

project_binf702

Project for BINF702

pyfilesystem2

Python's Filesystem abstraction layer

pyjip

JIP Pipeline System

pyloh_analysis

Wrapper to run pyLOH on phx-2

pysamstats

A fast Python and command-line utility for extracting simple statistics against genome positions based on sequence alignments from a SAM or BAM file.

python-textmate-template

A template for starting a new python script in textmate.

pythonpackagelesson

qjobs

qstat wrapper

readingpapers

A guide to reading scientific papers

reconcnv

visualize CNV data from targeted capture based sequencing data