Bionformatics Netherlands

A50-plot

allbiotc2

Benchmark pipeline for Structural Variation analyses, funded by the ALLBio

cufflinksviewer

cuff links viewer

d3

A JavaScript visualization library for HTML and SVG.

impress.js

It's a presentation framework based on the power of CSS3 transforms and transitions in modern browsers and inspired by the idea behind prezi.com.

Jellyfish

A fast multi-threaded k-mer counter

ldapauthenticator

LDAP Authenticator Plugin for Jupyter

samtools

This is the official development repository for samtools.

scythe

A 3'-end adapter contaminant trimmer

sga

de novo sequence assembler using string graphs

SimSeq

An illumina paired-end and mate-pair short read simulator. This project attempts to model as many of the quirks that exist in Illumina data as possible. Some of these quirks include the potential for chimeric reads, and non-biotinylated fragment pull down in mate-pair libraries . Additionally the program provides the ability to model both site and base specific error, and scripts are provided to train this error model on real datasets. My hope in creating this program is to generate as realistic data as possible to assist in assessing the accuracy of genome assembly tools.

Snap.svg

The JavaScript library for modern SVG graphics.

snpr

The sources of the openSNP website

sql.js

SQLite compiled to JavaScript through Emscripten

viz.js

A hack to put GraphViz on the web.

webmummer

Web Browser Mummer Plot Viewer

Apollo

Genome annotation editor, with a Java servlet backend and a Javascript client that runs in a web browser as a JBrowse plugin

bcbb

Incubator for useful bioinformatics code, primarily in Python and R

docker

Docker - the open-source application container engine

enter

Add a bug report to ask to join the group

jbrowse

A modern genome browser built with JavaScript and HTML5.

learn.jquery.com

jQuery Learning Center web site content

qrqc

Quick Read Quality Control