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brca-website

brca_pilot

allele specific gene expression analysis pipeline

converters

different file format converters

d3-timeline

Simple JS timeline plugin for d3

deepseq

Deep sequencing data analysis programs

deseq-hts

A Galaxy wrapper for DESeq program

genomeutils

Genome sequence and annotation processing utils

gfftools

GFF/GTF file processing utilities

gfftools-gx

gfftools - Galaxy toolshed repository

gx-utils

Galaxy Utils used for oqtans public instance

hgvs

HGVS variant name parsing and generation

htshelpers

HTS helper methods for normalizing and plotting in R

kengine-gx

Galaxy tools for clinical science

nupop-gx

Nucleosome Positioning Prediction

oqtans

Online Quantitative Transcriptome Analysis

pcr_primers

primer design using primer3

promoter_eval

promoter evaluation procedures

pyjobrunner

An extension of pythongrid program

pythongrid

High-level python wapper for the Sun Grid Engine (SGE) using DRMAA and ZMQ

shogun

The Shogun Machine Learning Toolbox (Source Code)

sinbad-gx

Exploring functional variant discovery in non-coding regions

taskmanager

Job submitter programs

tdu_htscreen

timelinebrowser

Visualization app

tool_dep_packages

galaxy tool dependency packages

transcriptskimmer

TranscriptSkimmer: Generate high confidence transcript structures from RNA-Seq data

trsk

Transcript skimmer: generate high confidence transcript structures from RNA-Seq data

tutorials_2014

tri institutional tutorials_2014 materials

vcf2maf

Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms