Project Name | Stars | Downloads | Repos Using This | Packages Using This | Most Recent Commit | Total Releases | Latest Release | Open Issues | License | Language |
---|---|---|---|---|---|---|---|---|---|---|
Deepvariant | 2,978 | 4 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. | ||||||||||
Fastp | 1,602 | 6 months ago | 1 | December 15, 2021 | 309 | mit | C++ | |||
An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...) | ||||||||||
Gatk | 1,576 | 2 | 12 days ago | 46 | March 16, 2023 | 1,299 | other | Java | ||
Official code repository for GATK versions 4 and up | ||||||||||
Galaxy | 1,211 | 2 | 23 | 2 months ago | 30 | December 08, 2023 | 2,169 | other | Python | |
Data intensive science for everyone. | ||||||||||
Getting Started With Genomics Tools And Resources | 991 | 2 months ago | 1 | Shell | ||||||
Unix, R and python tools for genomics and data science | ||||||||||
Adam | 966 | 20 | 17 | 2 months ago | 14 | December 16, 2020 | 35 | apache-2.0 | Scala | |
ADAM is a genomics analysis platform with specialized file formats built using Apache Avro, Apache Spark, and Apache Parquet. Apache 2 licensed. | ||||||||||
Sniffles | 479 | 3 months ago | 8 | July 27, 2023 | 95 | mit | Python | |||
Structural variation caller using third generation sequencing | ||||||||||
Cutadapt | 475 | 64 | 24 | 2 months ago | 64 | December 06, 2023 | 59 | mit | Python | |
Cutadapt removes adapter sequences from sequencing reads | ||||||||||
Manta | 333 | a year ago | 124 | gpl-3.0 | C++ | |||||
Structural variant and indel caller for mapped sequencing data | ||||||||||
Sarek | 299 | 2 months ago | 180 | mit | Nextflow | |||||
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing |