Alternatives and similar repositories for htsget

Users that are interested in htsget are comparing it to the libraries listed below

• biocommons / biocommons.seqrepo
  non-redundant, compressed, journalled, file-based storage for biological sequences
  ☆47Updated last week
• brentp / fraguracy
  overlapping bases in read-pairs from a fragment indicate accuracy and reveal error-prone sites
  ☆33Updated 5 months ago
• SamStudio8 / majora2
  Malleable All-seeing Journal Of Research Artifacts
  ☆35Updated 2 years ago
• bioforensics / rsidx
  Library for indexing VCF files for random access searches by rsID
  ☆17Updated 3 months ago
• quinlan-lab / pathoscore
  pathoscore evaluates variant pathogenicity tools and scores.
  ☆22Updated 3 years ago
• biobuilds / biobuilds
  Curated collection of open-source bioinformatics tools
  ☆28Updated 6 years ago
• EliLillyCo / pytest-wdl
  WDL plugin for pytest
  ☆48Updated 2 years ago
• dnanexus-archive / dx-cwl
  Import and run CWL workflows on DNAnexus (alpha)
  ☆13Updated 7 years ago
• brentp / rare-disease-wf
  (WIP) best-practices workflow for rare disease
  ☆62Updated last year
• dnanexus / dxWDL
  Workflow Description Language compiler for the DNAnexus platform
  ☆42Updated 2 years ago
• nextflow-io / cwl2nxf
  Import a CWL workflow specification to Nextflow script (experimental)
  ☆27Updated 7 years ago
• broadinstitute / wdl-runner
  Easily run WDL workflows on GCP
  ☆14Updated 4 years ago
• flalom / vcf-reformatter
  🧬 High-performance VCF file parser and reformatter with VEP annotation support. Converts complex VCF files to analyzable TSV format …
  ☆43Updated 3 months ago
• biocommons / bioutils
  provides common tools and lookup tables used primarily by the hgvs and uta packages
  ☆23Updated 2 months ago
• cancerit / cgpBigWig
  BigWig manpulation tools using libBigWig and htslib
  ☆29Updated last year
• common-workflow-lab / wdl2cwl
  [Experimental] Workflow Definition Language (WDL) to CWL
  ☆28Updated 4 years ago
• mlin / spVCF
  Sparse Project VCF: evolution of VCF to encode population genotype matrices efficiently
  ☆58Updated 2 years ago
• bihealth / hlama
  Simple matching of HTS samples based on HLA typing
  ☆13Updated 8 years ago
• sigven / vcf2tsvpy
  Genomic VCF to tab-separated values
  ☆48Updated 2 years ago
• rgcgithub / clamms
  CLAMMS is a scalable tool for detecting common and rare copy number variants from whole-exome sequencing data.
  ☆30Updated 4 years ago
• lgautier / fastq-and-furious
  Efficient handling of FASTQ files from Python
  ☆51Updated 3 months ago
• sbg / smart-variant-filtering
  ☆29Updated 4 years ago
• eilbecklab / clinvar-miner
  Website to analyze conflicting assertions in ClinVar
  ☆19Updated last year
• medvedevgroup / varmatch
  robust matching of small variant datasets using flexible scoring schemes
  ☆11Updated 5 years ago
• tseemann / homebrew-bioinformatics-linux
  Homebrew formulae for bioinformatics software only available for Linux
  ☆27Updated 6 years ago
• BD2KGenomics / toil-scripts
  Toil workflows for common genomic pipelines
  ☆33Updated 6 years ago
• brentp / geneimpacts
  prioritize effects of variant annotations from VEP, SnpEff, et al.
  ☆34Updated 11 months ago
• refresh-bio / GTC
  GenoTypes Compressor
  ☆16Updated 3 years ago
• jeremymcrae / clinical-filter
  filtering trio-based genetic variants in VCFs for clinical review
  ☆21Updated 5 years ago
• evoldoers / wtfgenes
  What's The Function of these genes?
  ☆22Updated 8 years ago