Project Name | Stars | Downloads | Repos Using This | Packages Using This | Most Recent Commit | Total Releases | Latest Release | Open Issues | License | Language |
---|---|---|---|---|---|---|---|---|---|---|
Deepvariant | 2,978 | 5 months ago | 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. | ||||||||||
Gatk | 1,576 | 2 | a month ago | 46 | March 16, 2023 | 1,299 | other | Java | ||
Official code repository for GATK versions 4 and up | ||||||||||
Ncov | 1,348 | 3 months ago | 82 | mit | Python | |||||
Nextstrain build for novel coronavirus SARS-CoV-2 | ||||||||||
Mosdepth | 617 | 5 months ago | 49 | mit | Nim | |||||
fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing | ||||||||||
Sniffles | 479 | 3 months ago | 8 | July 27, 2023 | 95 | mit | Python | |||
Structural variation caller using third generation sequencing | ||||||||||
Hisat2 | 345 | 2 years ago | 172 | gpl-3.0 | C++ | |||||
Graph-based alignment (Hierarchical Graph FM index) | ||||||||||
Sarek | 299 | 3 months ago | 180 | mit | Nextflow | |||||
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing | ||||||||||
Crispresso2 | 233 | 3 months ago | 24 | other | Python | |||||
Analysis of deep sequencing data for rapid and intuitive interpretation of genome editing experiments | ||||||||||
Hgvs | 226 | 16 | 12 | 3 months ago | 104 | November 21, 2022 | 67 | apache-2.0 | Python | |
Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs` | ||||||||||
Roary | 219 | 2 years ago | 83 | November 06, 2019 | 132 | gpl-3.0 | Perl | |||
Rapid large-scale prokaryote pan genome analysis |