sra-explorer by ewels

Web application to explore the Sequence Read Archive.

created at Sept. 19, 2014, 8:15 a.m.

9 +0

188 +0

27 +0

bioservices by cokelaer

Access to Biological Web Services from Python.

created at Aug. 28, 2014, 3:24 p.m.

18 +0

271 +0

61 +0

rnaseq_tutorial by griffithlab

Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.

created at July 31, 2014, 6:58 p.m.

184 +0

1,310 +0

615 +0

cufflinks by cole-trapnell-lab

None

created at July 25, 2014, 10:42 p.m.

36 +0

301 +1

115 +0

awesome-pipeline by pditommaso

A curated list of awesome pipeline toolkits inspired by Awesome Sysadmin

created at July 19, 2014, 3:48 p.m.

234 +0

5,912 +8

616 +1

smof by incertae-sedis

Explore and analyze biological sequence data

created at April 27, 2014, 12:34 p.m.

3 +0

15 +0

2 +0

pyensembl by openvax

Python interface to access reference genome features (such as genes, transcripts, and exons) from Ensembl

created at April 14, 2014, 3:23 p.m.

22 +0

352 +0

66 +0

prokka by tseemann

Rapid prokaryotic genome annotation

created at March 26, 2014, 7:19 a.m.

43 +0

754 +4

216 +1

pysam by pysam-developers

Pysam is a Python package for reading, manipulating, and writing genomics data such as SAM/BAM/CRAM and VCF/BCF files. It's a lightweight wrapper of the HTSlib API, the same one that powers samtools, bcftools, and tabix.

created at Feb. 5, 2014, 8:38 p.m.

48 +0

749 -1

270 +1

SnpEff by pcingola

None

created at Jan. 31, 2014, 10:22 p.m.

24 +0

228 +1

74 +0

bionode by bionode

Modular and universal bioinformatics

created at Jan. 23, 2014, 11:56 p.m.

36 +0

308 +0

39 +0

sift by teamdfir

SIFT

created at Jan. 18, 2014, 7:20 p.m.

74 +0

470 +0

66 +0

dnaism by drio

Horizon chart js library for DNA data.

created at Jan. 6, 2014, 4:33 p.m.

8 +0

60 +0

6 +0

bedtools2 by arq5x

bedtools - the swiss army knife for genome arithmetic

created at Dec. 9, 2013, 9:18 p.m.

58 +0

898 +0

283 +1

delly by dellytools

DELLY2: Structural variant discovery by integrated paired-end and split-read analysis

created at Nov. 15, 2013, 8:51 a.m.

34 +0

400 +1

135 +0

fastx_toolkit by agordon

FASTA/FASTQ pre-processing programs

created at Nov. 8, 2013, 1:03 p.m.

18 +0

155 +0

60 +0

islandplot by lairdm

SVG based genome viewer written in javascript using D3

created at Nov. 6, 2013, 10:22 p.m.

5 +0

33 +0

27 +0

oneliners by stephenturner

Useful bash one-liners for bioinformatics.

created at Oct. 19, 2013, 11:33 a.m.

157 +0

1,802 +2

511 +0

fastqp by mdshw5

Simple FASTQ quality assessment using Python

created at Sept. 23, 2013, 8:01 p.m.

6 +0

107 +0

14 +0

Circleator by jonathancrabtree

Flexible circular visualization of genome-associated data with BioPerl and SVG.

created at Sept. 13, 2013, 8:19 p.m.

5 +0

46 +1

8 +0