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diamond

Accelerated BLAST compatible local sequence aligner.

dl_autism

dnaomics

A set of bioinformatics utilities

formatr

Format R Code Automatically

gephi

Gephi - The Open Graph Viz Platform

gffcompare

classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF

ggfortify

Define fortify and autoplot functions to allow ggplot2 to handle some popular R packages.

ggvis

Interactive grammar of graphics for R

idr

IDR

julia

The Julia Language: A fresh approach to technical computing.

julia-studio

An IDE for the Julia Language

juliabyexample

Examples of Julia

kallisto

Near-optimal RNA-Seq quantification

knitr

A general-purpose tool for dynamic report generation in R

knitr-examples

a collection of knitr examples

leafcutter

Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae Kyung Im, Jonathan K. Pritchard

learn-julia-the-hard-way

Learn Julia the hard way!

logical_modelling_pipeline

Repository of the pipeline of computational methods for logical modelling of biological networks that are deregulated in diseases, developed by the Computational Systems Biology of Cancer group in Bioinformatics Laboratory of Institut Curie (Paris)

long-rna-seq-pipeline

STAR based ENCODE Long RNA-Seq processing pipeline

machine-learning-with-r-datasets

Formatted datasets for Machine Learning With R by Brett Lantz

macs

MACS -- Model-based Analysis of ChIP-Seq

maftools

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

metadata.jl

Metadata for registered Julia packages.

methylkit

R package for DNA methylation analysis

miso

MISO: Mixture of Isoforms model for RNA-Seq isoform quantitation

ngs

NGS Language Bindings

nhs_r_advanced_modelling_supervised_ml

Supervised ML tutorials for the NHS-R community

opentsdb

A scalable, distributed Time Series Database.

orange3

pandoc

Universal markup converter