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Bioinformatics & Genomics Tools

Tools and libraries for analyzing biological data, particularly for genomics and single cell transcriptomics.

The Linux Foundation

by The Linux Foundation

・

50 projects ・ Updated 14 Mar 2025

Project
Contributors
Organizations
Software value
Seurat
6,790
311
$1.5M
Biopython
2,079
390
$62M
Scanpy
1,607
216
$1.9M
BCFtools
1,560
200
$3.2M
SPAdes
1,383
119
$49M
SAMtools
1,204
208
$1.7M
Cellpose
1,145
131
$724K
Pysam
1,101
235
$9.9M
Integrative Genomics Viewer (IGV)
1,026
159
$7.6M
cBioPortal
993
116
$7.1M
OpenMS
958
111
$58M
Picard
922
128
$3.2M
MMseqs2
903
123
$15M
DIAMOND
761
111
$3M
CellProfiler
741
140
$6.4M
vg
728
102
$9M
anvi'o
691
61
$7.2M
TCGAbiolinks
687
56
$268K
Cactus
608
39
$1.4M
anndata
568
149
$981K
COBRA Toolbox
485
37
$17M
vcflib
422
96
$2.6M
BioPerl
415
65
$12M
Nextstrain NCOV
410
64
$1.7M
SeqAn
342
61
$21M
WiGiTS
316
28
$16M
PlantCV
313
19
$1.1M
BioJava
309
57
$11M
Ensembl Core API
308
20
$12M
UCSC Genome Browser
280
31
$130M
BEAST X
275
28
$34M
nf-core/ampliseq
271
36
$379K
VSEARCH
270
64
$1.1M
nf-core/scrnaseq
268
44
$2.1M
Auspice
267
53
$1.5M
Cell Ontology
255
43
$1.1M
Breedbase/SGN
244
19
$47M
Nextclade
221
38
$5.7M
nf-core/methylseq
218
34
$292K
GMOD Apollo
208
45
$6.4M
Catalyst.jl
206
52
$1.8M
InterMine
197
37
$27M
HMMER
188
44
$2.9M
SeqAn3
163
34
$5.9M
Genome
146
11
$32M
Tripal
116
20
$16M
Omics Playground
72
10
$3.4M
Bioconda
0
0
$0
Galaxy Tools Project
0
0
$0
Pango Designation
0
0
$0
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