vcfanno by brentp

annotate a VCF with other VCFs/BEDs/tabixed files

updated at April 22, 2024, 5:21 p.m.

26 +0

348 +0

55 +0

bamsurgeon by adamewing

tools for adding mutations to existing .bam files, used for testing mutation callers

updated at April 23, 2024, 8:44 a.m.

15 +0

226 +0

83 +0

wtdbg2 by ruanjue

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

updated at April 23, 2024, 11:16 a.m.

31 +0

493 +0

89 +0

gffutils by daler

GFF and GTF file manipulation and interconversion

updated at April 23, 2024, 3:10 p.m.

14 +0

267 +0

74 +0

cruzdb by brentp

python access to UCSC genomes database

updated at April 23, 2024, 8:01 p.m.

17 +0

134 +0

41 +0

lumpy-sv by arq5x

lumpy: a general probabilistic framework for structural variant discovery

updated at April 23, 2024, 8:49 p.m.

27 +0

299 +0

118 +0

parasail by jeffdaily

Pairwise Sequence Alignment Library

updated at April 25, 2024, 5:52 a.m.

18 +0

233 +0

34 +0

pyfaidx by mdshw5

Efficient pythonic random access to fasta subsequences

updated at April 25, 2024, 2:33 p.m.

9 +0

440 +0

73 +0

cufflinks by cole-trapnell-lab

None

updated at April 25, 2024, 3:01 p.m.

36 +0

301 +0

115 +0

biojs by biojs

🔬A library of JavaScript components to represent biological data

updated at April 26, 2024, 1:11 a.m.

70 +0

484 +0

121 +0

seqan3 by seqan

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

updated at April 26, 2024, 1:20 a.m.

24 +0

389 +0

80 +0

bioperl-live by bioperl

Core BioPerl 1.x code

updated at April 26, 2024, 3:29 p.m.

54 +0

289 +0

178 +0

telseq by zd1

A software for calculating telomere length

updated at April 26, 2024, 7:04 p.m.

9 +0

63 +0

26 +0

RNA-seq-analysis by crazyhottommy

RNAseq analysis notes from Ming Tang

updated at April 27, 2024, 11:05 a.m.

78 +0

839 +0

290 +0

Circleator by jonathancrabtree

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

updated at April 27, 2024, 3:44 p.m.

5 +0

46 +0

8 +0

bioSyntax by bioSyntax

Syntax highlighting for computational biology

updated at April 27, 2024, 3:49 p.m.

17 +0

247 +0

30 +0

fujiplot by mkanai

Fuji plot—a circos representation of multiple GWAS results—

updated at April 28, 2024, 1:50 a.m.

3 +0

66 +0

19 +0

ChIP-seq-analysis by crazyhottommy

ChIP-seq analysis notes from Ming Tang

updated at April 28, 2024, 6 a.m.

65 +0

708 +0

290 +0

canu by marbl

A single molecule sequence assembler for genomes large and small.

updated at April 28, 2024, 1:58 p.m.

54 +0

631 +1

177 +0

genozip by divonlan

A modern compressor for genomic files (FASTQ, SAM/BAM/CRAM, VCF, FASTA, GFF/GTF/GVF, 23andMe...), up to 5x better than gzip and faster too

updated at April 28, 2024, 2:04 p.m.

1 +0

149 +1

10 +0