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hotspot3d

3D hotspot mutation proximity analysis tool

htslib

C library for high-throughput sequencing data formats

ici

icr-workshop

ICR Workshop

individual_level_predixcan

jaffa

JAFFA is a multi-step pipeline that takes either raw RNA-Seq reads, or pre-assembled transcripts, then searches for gene fusions

jquery-file-upload

File Upload widget with multiple file selection, drag&drop support, progress bar, validation and preview images, audio and video for jQuery. Supports cross-domain, chunked and resumable file uploads. Works with any server-side platform (Google App Engine, PHP, Python, Ruby on Rails, Java, etc.) that supports standard HTML form file uploads.

junctionseq

The JunctionSeq R package is a powerful tool for testing and visualizing differential usage of exons and splice junctions in next-generation, high-throughput RNA-Seq experiments.

jupyter-docker-pymol

Container-based installation of pymol, with interaction through the browser via Jupyter notebook

maftools

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

mapsplice2

markovblues

Artificially generated 12-bar blues melodies using Variable-length Markov models and Probabilistic Suffix Trees

megane

MEGAnE

mirdeep

R routines for mirDeep data

mtag

Python command line tool for Multi-Trait Analysis of GWAS (MTAG)

mutect

MuTect -- Accurate and sensitive cancer mutation detection

my-tool

my project

nanocall

An Oxford Nanopore Basecaller

picard

A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.

predixcan_tools

protaeljs

JavaScript library for biological data visualization

pv

WebGL protein viewer

qorts

Quality of RNA-Seq Toolset

rkmh

Classify Oxford Nanopore reads using MinHash.

sambamba

Tools for working with SAM/BAM data

sbg-node-client

Seven Bridges NodeJS Client implementation

snpeff

solvebio-python

SolveBio Python bindings

soundjs

A Javascript library for working with Audio. It provides a consistent API for loading and playing audio on different browsers and devices. Currently supports WebAudio, HTML5 Audio, Cordova / PhoneGap, and a Flash fallback.

star-fusion

STAR-Fusion codebase