Ecosyste.ms: Packages
An open API service providing package, version and dependency metadata of many open source software ecosystems and registries.
Top 4.1% on spack.io
Top 2.9% dependent packages on spack.io
Top 4.4% forks on spack.io
Top 2.9% dependent packages on spack.io
Top 4.4% forks on spack.io
spack.io : htslib
C library for high-throughput sequencing data formats.
Registry
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Source
- JSON
purl: pkg:spack/htslib
Keywords: bam, bcf, bioinformatics, cram, htslib, ngs, sam, vcf
License: Other
Latest release: 4 months ago
First release: about 2 years ago
Dependent packages: 24
Stars: 674 on GitHub
Forks: 426 on GitHub
See more repository details: repos.ecosyste.ms
Last synced: 17 days ago
Top 0.9% on spack.io
21 versions - Latest release: 4 months ago - 36 dependent packages - 1 maintainer
samtools 1.19.2
SAM Tools provide various utilities for manipulating alignments in the SAM format, including sort...21 versions - Latest release: 4 months ago - 36 dependent packages - 1 maintainer
perl-bio-db-hts 3.01
Bio::DB::HTS - This is a Perl interface to the HTS Library.1 version - Latest release: 6 months ago
falco 1.2.1
A C++ drop-in replacement of FastQC to assess the quality of sequence read data1 version - Latest release: 8 months ago - 51 stars on GitHub
salmon 1.10.2
Salmon is a tool for quantifying the expression of transcripts using RNA-seq data.7 versions - Latest release: 10 months ago - 1 dependent package - 1 maintainer
shapeit4 4.2.2
SHAPEIT4 is a fast and accurate method for estimation of haplotypes (aka phasing) for SNP array a...2 versions - Latest release: 11 months ago - 1 maintainer
Top 4.4% on spack.io
8 versions - Latest release: about 1 year ago - 34 dependent packages - 640 stars on GitHub - 1 maintainer
py-pysam 0.21.0
A python module for reading, manipulating and writing genomic data sets.8 versions - Latest release: about 1 year ago - 34 dependent packages - 640 stars on GitHub - 1 maintainer
Top 5.8% on spack.io
6 versions - Latest release: about 1 year ago - 4 dependent packages
augustus 3.5.0
AUGUSTUS is a program that predicts genes in eukaryotic genomic sequences6 versions - Latest release: about 1 year ago - 4 dependent packages
Top 3.8% on spack.io
16 versions - Latest release: over 1 year ago - 7 dependent packages - 1 maintainer
bcftools 1.15.1
BCFtools is a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and...16 versions - Latest release: over 1 year ago - 7 dependent packages - 1 maintainer
pbbam 2.1.0
The pbbam software package provides components to create, query, & edit PacBio BAM files and asso...2 versions - Latest release: over 1 year ago - 2 dependent packages - 19 stars on GitHub - 1 maintainer
qtltools 1.3.1
A complete tool set for molecular QTL discovery and analysis.2 versions - Latest release: over 1 year ago
py-medaka 1.7.2
medaka is a tool to create consensus sequences and variant calls from nanopore sequencing data. T...1 version - Latest release: over 1 year ago - 295 stars on GitHub - 1 maintainer
methyldackel 0.6.1
MethylDackel (formerly named PileOMeth, which was a temporary name derived due to it using a PILE...1 version - Latest release: over 1 year ago - 126 stars on GitHub - 1 maintainer
eagle 1.1.3
EAGLE: Explicit Alternative Genome Likelihood Evaluator2 versions - Latest release: about 2 years ago - 15 stars on GitHub - 1 maintainer
scallop 0.10.5
Scallop is a reference-based transcriptome assembler for RNA-seq2 versions - Latest release: about 2 years ago - 81 stars on GitHub
reditools 1.3_2020-03-20
REDItools: python scripts for RNA editing detection by RNA-Seq data. REDItools are simple python ...2 versions - Latest release: about 2 years ago - 44 stars on GitHub - 1 maintainer
platypus 0.8.1 removed
A Haplotype-Based Variant Caller For Next Generation Sequence Data1 version - Latest release: about 2 years ago
pindel 0.2.5
Pindel can detect breakpoints from next-gen sequence data.7 versions - Latest release: about 2 years ago
lumpy-sv 0.2.13
A probabilistic framework for structural variant discovery.1 version - Latest release: about 2 years ago - 269 stars on GitHub
freebayes 1.3.6
Bayesian haplotype-based genetic polymorphism discovery and genotyping.3 versions - Latest release: about 2 years ago - 1 dependent package - 665 stars on GitHub
denovogear 1.1.1
DeNovoGear is a software package to detect de novo mutations using next- generation sequencing da...2 versions - Latest release: about 2 years ago
delly2 0.9.1
Delly2 is an integrated structural variant prediction method that can discover, genotype and visu...2 versions - Latest release: about 2 years ago - 342 stars on GitHub - 1 maintainer
cnvnator 0.3.3
A tool for CNV discovery and genotyping from depth-of-coverage by mapped reads.1 version - Latest release: about 2 years ago - 179 stars on GitHub
Top 9.9% on spack.io
1 version - Latest release: about 2 years ago - 2 dependent packages
blasr 5.3.1 removed
The PacBio long read aligner.1 version - Latest release: about 2 years ago - 2 dependent packages
angsd 0.919
Angsd is a program for analysing NGS data. The software can handle a number of different input ty...4 versions - Latest release: about 2 years ago - 183 stars on GitHub