| google/deepvariant |
2,978 |
|
0 |
0 |
over 2 years ago |
0 |
|
8 |
bsd-3-clause |
Python |
| DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data. |
| broadinstitute/gatk |
1,549 |
|
0 |
2 |
about 2 years ago |
46 |
March 16, 2023 |
1,299 |
other |
Java |
| Official code repository for GATK versions 4 and up |
| nextstrain/ncov |
1,348 |
|
0 |
0 |
about 2 years ago |
0 |
|
82 |
mit |
Python |
| Nextstrain build for novel coronavirus SARS-CoV-2 |
| brentp/mosdepth |
617 |
|
0 |
0 |
over 2 years ago |
0 |
|
49 |
mit |
Nim |
| fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing |
| fritzsedlazeck/Sniffles |
479 |
|
0 |
0 |
over 2 years ago |
8 |
July 27, 2023 |
95 |
mit |
Python |
| Structural variation caller using third generation sequencing |
| DaehwanKimLab/hisat2 |
345 |
|
0 |
0 |
about 4 years ago |
0 |
|
172 |
gpl-3.0 |
C++ |
| Graph-based alignment (Hierarchical Graph FM index) |
| nf-core/sarek |
299 |
|
0 |
0 |
about 2 years ago |
0 |
|
180 |
mit |
Nextflow |
| Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing |
| pinellolab/CRISPResso2 |
233 |
|
0 |
0 |
about 2 years ago |
0 |
|
24 |
other |
Python |
| Analysis of deep sequencing data for rapid and intuitive interpretation of genome editing experiments |
| biocommons/hgvs |
226 |
|
16 |
12 |
about 2 years ago |
104 |
November 21, 2022 |
67 |
apache-2.0 |
Python |
| Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs` |
| sanger-pathogens/Roary |
219 |
|
0 |
0 |
almost 4 years ago |
83 |
November 06, 2019 |
132 |
gpl-3.0 |
Perl |
| Rapid large-scale prokaryote pan genome analysis |
