Alternatives and similar repositories for bio-vcf:

Users that are interested in bio-vcf are comparing it to the libraries listed below

• quinlan-lab / vcf2db
  create a gemini-compatible database from a VCF
  ☆56Updated 4 years ago
• hartleys / QoRTs
  Quality of RNA-Seq Toolset
  ☆53Updated 6 years ago
• gogetdata / ggd-recipes
  conda recipes for genomic data
  ☆85Updated 3 years ago
• macarthur-lab / igv_utils
  utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.
  ☆48Updated 5 years ago
• mozack / abra
  Assembly Based ReAligner
  ☆73Updated 6 years ago
• cc2qe / vawk
  An awk-like VCF parser
  ☆56Updated last year
• Ettwiller / Damage-estimator
  Estimate damage in standard NGS library preparation. Incompatible with library preparation methods from which the imbalance is lost (such…
  ☆53Updated 7 years ago
• relipmoc / skewer
  ☆94Updated 2 years ago
• ChristopherWilks / megadepth
  BigWig and BAM utilities
  ☆96Updated last year
• gatk-workflows / five-dollar-genome-analysis-pipeline
  Workflows used for WGS data processing -- replaced by https://github.com/gatk-workflows/gatk4-genome-processing-pipeline
  ☆57Updated 5 years ago
• pmelsted / pizzly
  Fast fusion detection using kallisto
  ☆80Updated 6 months ago
• lh3 / bgt
  Flexible genotype query among 30,000+ samples whole-genome
  ☆96Updated 5 years ago
• arq5x / bedtools-protocols
  ☆78Updated 11 years ago
• lpantano / seqcluster
  small RNA analysis from NGS data
  ☆37Updated 7 months ago
• dpryan79 / libBigWig
  A C library for handling bigWig files
  ☆79Updated 3 months ago
• arq5x / grabix
  a wee tool for random access into BGZF files.
  ☆84Updated 6 years ago
• bioinform / metasv
  MetaSV: An accurate and integrative structural-variant caller for next generation sequencing
  ☆55Updated 7 years ago
• ckandoth / variant-filter
  A false-positive filter for variants called from massively parallel sequencing
  ☆29Updated 7 years ago
• RCollins13 / CNView
  Visualization and annotation of CNVs from population-scale whole-genome sequencing data
  ☆71Updated 7 years ago
• guigolab / grape-nf
  An automated RNA-seq pipeline using Nextflow
  ☆37Updated 7 months ago
• ssadedin / bazam
  A read extraction and realignment tool for next generation sequencing data
  ☆99Updated 2 years ago
• brentp / duphold
  don't get DUP'ed or DEL'ed by your putative SVs.
  ☆105Updated 4 years ago
• deaconjs / ThousandVariantCallersRepo
  Thousand Variant Callers Project Repository
  ☆72Updated 5 years ago
• brentp / jigv
  igv.js standalone page generator and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"
  ☆126Updated last year
• DaehwanKimLab / hisat
  Fast spliced aligner with low memory requirements
  ☆41Updated 9 years ago
• slowkow / picardmetrics
  Run Picard on BAM files and collate 90 metrics into one file.
  ☆41Updated 7 years ago
• tk2 / RetroSeq
  RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference…
  ☆65Updated 2 years ago
• kenchen / breakdancer
  SV detection from paired end reads mapping
  ☆38Updated 14 years ago
• h3abionet / h3agatk
  ☆21Updated 4 years ago
• walaj / VariantBam
  Filtering and profiling of next-generational sequencing data using region-specific rules
  ☆77Updated last year