74 results found Sort:

google
deepvariant google
728
3.3k
bsd-3-clause
156
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
dna ngs genome science genomics sequencing tensorflow deepvariant deep-learning bioinformatics machine-learning deep-neural-network
Created 2017-11-23
2,914 commits to r1.8 branch, last one 11 days ago
bitfieldaudio
OTTO bitfieldaudio
144
2.6k
other
208
Sampler, Sequencer, Multi-engine synth and effects - in a box! [WIP]
audio music synth ui-design sequencing synthesizer raspberry-pi audio-processing
Created 2017-02-21
1,241 commits to develop branch, last one about a year ago
OpenGene
fastp OpenGene
334
2.0k
mit
51
An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
qc ngs umi fastq polyg filter adapter merging overlap quality illumina trimming filtering splitting sequencing duplication preprocessing bioinformatics quality-control
Created 2017-10-31
465 commits to master branch, last one 23 days ago
broadinstitute
gatk broadinstitute
596
1.7k
other
154
Official code repository for GATK versions 4 and up
dna ngs gatk spark genome science genomics sequencing bioinformatics
Created 2014-12-02
4,726 commits to master branch, last one 10 days ago
galaxyproject
galaxy galaxyproject
1.0k
1.4k
other
69
Data intensive science for everyone.
dna ngs science genomics pipeline workflow usegalaxy sequencing hacktoberfest bioinformatics workflow-engine
Created 2015-02-23
80,179 commits to dev branch, last one a day ago
ablab
spades ablab
139
771
other
32
SPAdes Genome Assembler
illumina sequencing genome-assembly sequence-assembler metagenome-assembly transcriptome-assembly next-generation-sequencing
Created 2016-06-01
15,116 commits to main branch, last one 8 days ago
brentp
mosdepth brentp
101
704
mit
22
fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing
nim wgs depth exome genome coverage nim-lang sequencing hacktoberfest
Created 2017-08-24
236 commits to master branch, last one 26 days ago
xebia-functional
fetch xebia-functional
49
498
apache-2.0
53
Simple & Efficient data access for Scala and Scala.js
cats data monix scala monads scala-js sequencing concurrency parallelism data-fetching
Created 2016-03-04
1,383 commits to main branch, last one a day ago
ideoforms
isobar ideoforms
53
379
mit
20
A Python package for creating and manipulating musical patterns, designed for use in algorithmic composition, generative music and sonification. Can be used to generate MIDI events, MIDI files, OSC me...
midi music sequencing composition algorithmic-composition
Created 2011-08-04
593 commits to master branch, last one 23 days ago
milaboratory
mixcr milaboratory
79
338
other
31
MiXCR is an ultimate software platform for analysis of Next-Generation Sequencing (NGS) data for immune profiling.
10x t-cell rep-seq rna-seq antibody immunology sequencing single-cell bioinformatics t-cell-receptor
Created 2015-03-30
3,995 commits to develop branch, last one 3 days ago
ACEnglish
truvari ACEnglish
49
328
mit
13
Structural variant toolkit for VCFs
vcf genomics sequencing sv-merging benchmarking data-science bioinformatics vcf-comparison annotation-tool structural-variation
Created 2018-04-13
1,359 commits to develop branch, last one 2 days ago
sanger-pathogens
Roary sanger-pathogens
190
325
other
29
Rapid large-scale prokaryote pan genome analysis
genomics pathogen research sequencing global-health bioinformatics infectious-diseases bioinformatics-pipeline next-generation-sequencing
Created 2013-04-18
930 commits to master branch, last one 2 years ago
tmhglnd
mercury tmhglnd
14
310
gpl-3.0
12
A minimal and human-readable language and environment for the live coding of algorithmic electronic music.
osc sounds mercury visuals language livecoding sequencing live-coding performance creative-coding mercury-environment algorithmic-composition human-readable-language
Created 2019-11-19
648 commits to master branch, last one 28 days ago
r3fang
SnapATAC r3fang
126
308
gpl-3.0
14
Analysis Pipeline for Single Cell ATAC-seq
sequencing epigenetics single-cell-analysis single-cell-atac-seq bioinformatics-pipeline machine-learning-algorithms
Created 2019-02-19
228 commits to master branch, last one 2 years ago
samtools
htsjdk samtools
245
285
unknown
50
A Java API for high-throughput sequencing data (HTS) formats.
bam dna ngs sam vcf cram java fasta genomics java-api sequencing
Created 2014-04-29
2,853 commits to master branch, last one 3 days ago
wurmlab
sequenceserver wurmlab
114
273
agpl-3.0
19
Intuitive graphical web interface for running BLAST bioinformatics tool (i.e. have your own custom NCBI BLAST site!)
ruby blast genomics javascript sequencing hacktoberfest visualization bioinformatics sequence-alignment genomics-visualization
Created 2010-10-01
2,455 commits to master branch, last one 19 days ago
biocommons
hgvs biocommons
94
248
apache-2.0
20
Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`
genomics variation sequencing bioinformatics genome-analysis variant-analysis
Created 2017-03-09
1,664 commits to main branch, last one 25 days ago
sortmerna
sortmerna sortmerna
68
248
gpl-3.0
15
SortMeRNA: next-generation sequence filtering and alignment tool
cpp ngs python alignment sequencing bioinformatics metatranscriptomics
Created 2014-03-14
1,343 commits to master branch, last one 2 months ago
sanger-pathogens
Artemis sanger-pathogens
77
239
other
17
Artemis is a free genome viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence, and its six-frame translation
genomics pathogen research sequencing global-health bioinformatics infectious-diseases bioinformatics-pipeline next-generation-sequencing
Created 2009-09-30
5,443 commits to master branch, last one about a year ago
sanger-pathogens
circlator sanger-pathogens
60
233
other
21
A tool to circularize genome assemblies
genomics pathogen research sequencing global-health bioinformatics infectious-diseases bioinformatics-pipeline next-generation-sequencing
Created 2015-04-16
387 commits to master branch, last one about a year ago
nextstrain
nextclade nextstrain
61
220
mit
20
Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement
dna rna ncov clade covid virus clades strain covid19 science covid-19 neherlab research influenza sequences nextstrain sars-cov-2 sequencing coronavirus next-generation-sequencing
Created 2020-06-12
6,430 commits to master branch, last one 5 days ago
ZJUFanLab
scCATCH ZJUFanLab
38
220
gpl-3.0
5
Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
seurat rna-seq sequencing single-cell cell-markers marker-genes transcriptome transcriptomics cluster-annotation
Created 2019-08-06
118 commits to master branch, last one about a year ago
ugeneunipro
ugene ugeneunipro
63
219
gpl-2.0
21
UGENE is free open-source cross-platform bioinformatics software
cpp dna msa ngs qt5 ugene science pipeline workflow sequencing bioinformatics cross-platform
Created 2016-03-11
17,064 commits to master branch, last one a day ago
igordot
genomics igordot
54
201
unknown
7
A collection of scripts and notes related to genomics and bioinformatics
dna gtf vcf fast5 fasta fastq science genomics illumina nanopore workflow sequencing bioinformatics
Created 2015-12-22
118 commits to master branch, last one about a month ago
HadrienG
InSilicoSeq HadrienG
33
190
mit
11
:rocket: A sequencing simulator
sequencing simulation metagenomics bioinformatics illumina-sequencing
Created 2016-11-16
644 commits to master branch, last one 10 months ago
nickjcroucher
gubbins nickjcroucher
52
176
gpl-2.0
11
Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins
genomics pathogen research sequencing global-health bioinformatics infectious-diseases bioinformatics-pipeline next-generation-sequencing
Created 2011-11-01
2,508 commits to master branch, last one about a month ago
sanger-pathogens
ariba sanger-pathogens
55
172
other
22
Antimicrobial Resistance Identification By Assembly
genomics pathogen research sequencing global-health bioinformatics infectious-diseases bioinformatics-pipeline next-generation-sequencing
Created 2015-02-11
1,797 commits to master branch, last one about a year ago
LooseLab
readfish LooseLab
34
170
gpl-3.0
14
CLI tool for flexible and fast adaptive sampling on ONT sequencers
ont genomics sequencing bioinformatics oxford-nanopore adaptive-sampling
Created 2019-11-08
406 commits to main branch, last one 3 months ago
mlin
GenomicSQLite mlin
11
162
apache-2.0
5
Genomics Extension for SQLite
sqlite sqlite3 genomics sequencing bioinformatics
Created 2020-05-26
173 commits to main branch, last one 11 months ago
google
deepsomatic google
15
150
bsd-3-clause
11
DeepSomatic is an analysis pipeline that uses a deep neural network to call somatic variants from tumor-normal and tumor-only sequencing data.
dna genome machine science genomics sequencing deepsomatic deep-learning bioinformatics somatic-variants somatic-mutations
Created 2023-10-11
14 commits to r1.8 branch, last one 17 days ago