Alternatives and similar repositories for EIG:

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

• odelaneau / GLIMPSE
  Low Coverage Calling of Genotypes
  ☆150Updated 2 months ago
• szpiech / selscan
  Haplotype based scans for selection
  ☆126Updated last week
• DReichLab / AdmixTools
  Tools test whether admixture occurred and more
  ☆196Updated 7 months ago
• BGI-shenzhen / PopLDdecay
  PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files
  ☆189Updated 8 months ago
• luntergroup / octopus
  Bayesian haplotype-based mutation calling
  ☆311Updated last month
• brentp / vcfanno
  annotate a VCF with other VCFs/BEDs/tabixed files
  ☆375Updated last year
• snakemake-workflows / dna-seq-gatk-variant-calling
  This Snakemake pipeline implements the GATK best-practices workflow
  ☆253Updated last year
• bedops / bedops
  BEDOPS: high-performance genomic feature operations
  ☆327Updated 2 weeks ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆157Updated 2 years ago
• brentp / smoove
  structural variant calling and genotyping with existing tools, but, smoothly.
  ☆249Updated 10 months ago
• OpenGene / AfterQC
  Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data
  ☆209Updated 4 years ago
• abyzovlab / CNVnator
  a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads
  ☆220Updated 3 years ago
• ANGSD / angsd
  Program for analysing NGS data.
  ☆236Updated last month
• AstraZeneca-NGS / VarDict
  VarDict
  ☆198Updated last year
• RealTimeGenomics / rtg-tools
  RTG Tools: Utilities for accurate VCF comparison and manipulation
  ☆316Updated 10 months ago
• ryanlayer / samplot
  Plot structural variant signals from many BAMs and CRAMs
  ☆541Updated 9 months ago
• zhanxw / rvtests
  Rare variant test software for next generation sequencing data
  ☆139Updated 3 years ago
• broadinstitute / gatk-docs
  Documentation archive for GATK tools and workflows
  ☆85Updated 5 years ago
• armartin / ancestry_pipeline
  Provides helper scripts for inferring local ancestry, performing ancestry-specific PCA, etc
  ☆109Updated 3 years ago
• arq5x / lumpy-sv
  lumpy: a general probabilistic framework for structural variant discovery
  ☆324Updated 2 years ago
• BGI-shenzhen / LDBlockShow
  LDBlockShow: a fast and convenient tool for visualizing linkage disequilibrium and haplotype blocks based on VCF files
  ☆168Updated last year
• mskcc / vcf2maf
  Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms
  ☆386Updated 4 months ago
• atks / vt
  A tool set for short variant discovery in genetic sequence data.
  ☆196Updated 3 years ago
• JoniColeman / gwas_scripts
  Codebook from my GWAS cookbook
  ☆190Updated 2 years ago
• lh3 / psmc
  Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model
  ☆166Updated 2 years ago
• edgardomortiz / vcf2phylip
  Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
  ☆309Updated last year
• freeseek / gtc2vcf
  Tools to convert Illumina IDAT/BPM/EGT/GTC and Affymetrix CEL/CHP files to VCF
  ☆150Updated 2 months ago
• PapenfussLab / gridss
  GRIDSS: the Genomic Rearrangement IDentification Software Suite
  ☆268Updated last year
• hall-lab / speedseq
  A flexible framework for rapid genome analysis and interpretation
  ☆316Updated 2 years ago
• ga4gh / benchmarking-tools
  Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls
  ☆203Updated 4 years ago