redun by insitro

Yet another redundant workflow engine

created at Nov. 4, 2021, 12:14 a.m.

15 +0

486 +2

37 +0

bakta by oschwengers

Rapid & standardized annotation of bacterial genomes, MAGs & plasmids

created at Jan. 15, 2020, 11:08 p.m.

14 +0

391 +5

42 +0

squiggle by IQTLabs

📈 DNA Sequence Visualization for Humans

created at July 4, 2018, 3:47 a.m.

6 +0

38 +0

8 +0

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.

160 +0

3,077 +1

695 +1

ggd-cli by gogetdata

The command-line interface to GGD

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

5 +0

42 +0

3 +0

bam-toolbox by AndersenLab

A bam toolbox

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

10 +0

1 +0

1 +0

hail by hail-is

Cloud-native genomic dataframes and batch computing

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

55 +0

934 -2

235 +1

RNA-seq-analysis by crazyhottommy

RNAseq analysis notes from Ming Tang

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

78 +0

839 +4

290 +0

AfterQC by OpenGene

Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data

created at Aug. 4, 2015, 2:08 p.m.

20 +0

201 +0

51 +0

ChIP-seq-analysis by crazyhottommy

ChIP-seq analysis notes from Ming Tang

created at June 12, 2015, 9:42 p.m.

65 +0

708 +6

290 +2

poapy by ljdursi

A simple Partial Order Aligner based on Lee, Grasso and Sharlow (2002), for education/demonstration purposes

created at April 28, 2015, 9:38 p.m.

8 +0

68 +0

12 +0

easy_qsub by shenwei356

Easily submitting multiple PBS jobs or running local jobs in parallel. Multiple input files supported.

created at March 9, 2015, 9:40 a.m.

3 +0

28 +0

8 +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

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

fastqp by mdshw5

Simple FASTQ quality assessment using Python

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

6 +0

107 +0

14 +0

pyfaidx by mdshw5

Efficient pythonic random access to fasta subsequences

created at Sept. 12, 2013, 7:02 p.m.

9 +0

440 +0

73 +0

bcbio-nextgen by bcbio

Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis

created at Feb. 6, 2013, 11:14 a.m.

87 +0

973 -1

357 +0

ruffus by cgat-developers

CGAT-ruffus is a lightweight python module for running computational pipelines

created at Jan. 6, 2013, 10:20 p.m.

11 +0

171 +0

34 +0

wormtable by wormtable

Write-once-read-many table for large datasets.

created at Oct. 27, 2012, 5:01 p.m.

6 +0

27 +0

5 +0