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 2 months ago
• flalom / vcf-reformatter
  🧬 High-performance VCF file parser and reformatter with VEP annotation support. Converts complex VCF files to analyzable TSV format …
  ☆41Updated 2 months ago
• EliLillyCo / pytest-wdl
  WDL plugin for pytest
  ☆48Updated 2 years ago
• dnanexus / dxWDL
  Workflow Description Language compiler for the DNAnexus platform
  ☆42Updated 2 years ago
• biobuilds / biobuilds
  Curated collection of open-source bioinformatics tools
  ☆28Updated 6 years ago
• quinlan-lab / pathoscore
  pathoscore evaluates variant pathogenicity tools and scores.
  ☆22Updated 3 years ago
• cancerit / cgpBigWig
  BigWig manpulation tools using libBigWig and htslib
  ☆29Updated last year
• mlin / spVCF
  Sparse Project VCF: evolution of VCF to encode population genotype matrices efficiently
  ☆58Updated 2 years ago
• medvedevgroup / varmatch
  robust matching of small variant datasets using flexible scoring schemes
  ☆11Updated 5 years ago
• dnanexus-archive / dx-cwl
  Import and run CWL workflows on DNAnexus (alpha)
  ☆13Updated 7 years ago
• bioforensics / rsidx
  Library for indexing VCF files for random access searches by rsID
  ☆17Updated 3 months ago
• brentp / geneimpacts
  prioritize effects of variant annotations from VEP, SnpEff, et al.
  ☆34Updated 10 months ago
• refresh-bio / GTC
  GenoTypes Compressor
  ☆16Updated 3 years ago
• broadinstitute / wdl-runner
  Easily run WDL workflows on GCP
  ☆14Updated 4 years ago
• solvebio / veppy
  Variant Effect Prediction for Python
  ☆15Updated 8 years ago
• sigven / vcf2tsvpy
  Genomic VCF to tab-separated values
  ☆47Updated 2 years ago
• biocommons / bioutils
  provides common tools and lookup tables used primarily by the hgvs and uta packages
  ☆23Updated last month
• common-workflow-lab / wdl2cwl
  [Experimental] Workflow Definition Language (WDL) to CWL
  ☆28Updated 3 years ago
• DecodeGenetics / BamHash
  ☆36Updated 5 years ago
• ryanlayer / svv
  Stupid Simple Structural Variant View
  ☆25Updated 8 years ago
• iobio / iobio.viz
  Visualization and charting JS library for streaming genomic data
  ☆19Updated 10 months ago
• brentp / rare-disease-wf
  (WIP) best-practices workflow for rare disease
  ☆62Updated last year
• evoldoers / wtfgenes
  What's The Function of these genes?
  ☆22Updated 8 years ago
• brentp / fraguracy
  overlapping bases in read-pairs from a fragment indicate accuracy and reveal error-prone sites
  ☆33Updated 4 months ago
• quinlan-lab / vcf2db
  create a gemini-compatible database from a VCF
  ☆56Updated 4 years ago
• jeremymcrae / clinical-filter
  filtering trio-based genetic variants in VCFs for clinical review
  ☆21Updated 5 years ago
• Steven-N-Hart / vcf-miner
  VCF-Miner: A graphical user interface for sorting, filtering and querying annotated VCF Files
  ☆37Updated 5 years ago
• brentp / irelate
  Streaming relation (overlap, distance, KNN) of (any number of) sorted genomic interval sets. #golang
  ☆47Updated 5 years ago
• seandavi / ci4cc-informatics-resources
  Community-maintained list of resources that the CI4CC organization and the larger cancer informatics community have found useful or are d…
  ☆22Updated 7 years ago
• bihealth / hlama
  Simple matching of HTS samples based on HLA typing
  ☆13Updated 8 years ago