danielecook/Awesome-Bioinformatics

bioSyntax by bioSyntax

Syntax highlighting for computational biology

created at Dec. 5, 2017, 2:25 a.m.

Shell

17 +0

247 +0

30 +0

GitHub

deepvariant by google

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

created at Nov. 23, 2017, 1:56 a.m.

Python

159 +0

3,084 +4

696 +1

GitHub

wtdbg2 by ruanjue

Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly

created at Sept. 29, 2017, 10:24 a.m.

C

31 +0

493 +0

89 +0

GitHub

mosdepth by brentp

fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing

created at Aug. 24, 2017, 4:32 p.m.

Nim

23 +0

657 +0

100 +0

GitHub

r-peridot by pentalpha

Software for intuitively doing Differential Gene Expression (DGE) analysis on Windows and GNU\Linux, based on R packages.

created at April 27, 2017, 5:47 p.m.

Java

2 +0

4 +0

0 +0

GitHub

PHAT by chgibb

Pathogen-Host Analysis Tool - A modern Next-Generation Sequencing (NGS) analysis platform

created at Oct. 11, 2016, 3:04 p.m.

TypeScript

4 +0

17 +0

2 +0

GitHub

MMseqs2 by soedinglab

MMseqs2: ultra fast and sensitive search and clustering suite

created at July 20, 2016, 6:17 a.m.

C

31 +0

1,265 +4

179 +0

GitHub

bioinformatics by ossu

Path to a free self-taught education in Bioinformatics!

created at June 21, 2016, 11:11 p.m.

Unknown languages

359 +1

5,057 +12

856 +1

GitHub

spades by ablab

SPAdes Genome Assembler

created at June 1, 2016, 3:06 p.m.

C++

32 +0

676 +8

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GitHub

ggd-cli by gogetdata

The command-line interface to GGD

created at April 22, 2016, 3:36 p.m.

Python

5 +0

42 +0

3 +0

GitHub

gsort by brentp

sort genomic data

created at April 15, 2016, 6:41 p.m.

Go

5 +0

35 +0

1 +0

GitHub

seqan3 by seqan

The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.

created at April 4, 2016, 12:39 p.m.

C++

24 +0

389 +0

80 +0

GitHub

csvtk by shenwei356

A cross-platform, efficient and practical CSV/TSV toolkit in Golang

created at April 3, 2016, 2:31 p.m.

Go

25 +0

961 +5

84 +0

GitHub

Flye by fenderglass

De novo assembler for single molecule sequencing reads using repeat graphs

created at March 17, 2016, 10:47 p.m.

C

28 +0

731 +3

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GitHub

seqkit by shenwei356

A cross-platform and ultrafast toolkit for FASTA/Q file manipulation

created at Feb. 28, 2016, 10:04 a.m.

Go

27 +0

1,208 +1

156 +0

GitHub

bam-toolbox by AndersenLab

A bam toolbox

created at Oct. 28, 2015, 4:36 p.m.

Python

10 +0

1 +0

GitHub

hail by hail-is

Cloud-native genomic dataframes and batch computing

created at Oct. 27, 2015, 8:55 p.m.

Python

55 +0

938 +0

235 +0

GitHub

RNA-seq-analysis by crazyhottommy

RNAseq analysis notes from Ming Tang

created at Aug. 26, 2015, 7:37 p.m.

Python

78 +0

840 +1

290 +0

GitHub

canu by marbl

A single molecule sequence assembler for genomes large and small.

created at Aug. 21, 2015, 3:10 a.m.

C++

54 +0

632 +1

177 +0

GitHub

cyvcf2 by brentp

cython + htslib == fast VCF and BCF processing

created at Aug. 12, 2015, 2:30 p.m.

Cython

7 +0

357 +0

71 +0

GitHub