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
  ☆162Updated last week
• bedops / bedops
  BEDOPS: high-performance genomic feature operations
  ☆354Updated 6 months ago
• abyzovlab / CNVnator
  a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads
  ☆230Updated 3 years ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆165Updated 2 years ago
• atks / vt
  A tool set for short variant discovery in genetic sequence data.
  ☆202Updated 4 years ago
• zhanxw / rvtests
  Rare variant test software for next generation sequencing data
  ☆141Updated 3 years ago
• brentp / vcfanno
  annotate a VCF with other VCFs/BEDs/tabixed files
  ☆389Updated 2 months ago
• PapenfussLab / gridss
  GRIDSS: the Genomic Rearrangement IDentification Software Suite
  ☆280Updated 6 months ago
• freeseek / gtc2vcf
  Tools to convert Illumina IDAT/BPM/EGT/GTC and Affymetrix CEL/CHP files to VCF
  ☆161Updated 3 months ago
• AstraZeneca-NGS / VarDict
  VarDict
  ☆200Updated last year
• DReichLab / AdmixTools
  Tools test whether admixture occurred and more
  ☆213Updated last year
• brentp / smoove
  structural variant calling and genotyping with existing tools, but, smoothly.
  ☆260Updated last year
• hall-lab / svtools
  Tools for processing and analyzing structural variants.
  ☆154Updated 3 years ago
• arq5x / lumpy-sv
  lumpy: a general probabilistic framework for structural variant discovery
  ☆334Updated 3 years ago
• hall-lab / svtyper
  Bayesian genotyper for structural variants
  ☆136Updated 4 years ago
• OpenGene / AfterQC
  Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data
  ☆213Updated 5 years ago
• armartin / ancestry_pipeline
  Provides helper scripts for inferring local ancestry, performing ancestry-specific PCA, etc
  ☆113Updated 4 years ago
• luntergroup / octopus
  Bayesian haplotype-based mutation calling
  ☆320Updated last month
• ENCODE-DCC / kentUtils
  UCSC command line bioinformatic utilities
  ☆185Updated last year
• BGI-shenzhen / PopLDdecay
  PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files
  ☆200Updated last year
• genome / bam-readcount
  Count bases in BAM/CRAM files
  ☆319Updated 3 years ago
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆249Updated 2 months ago
• szpiech / selscan
  Haplotype based scans for selection
  ☆136Updated 2 weeks ago
• BGI-shenzhen / LDBlockShow
  LDBlockShow: a fast and convenient tool for visualizing linkage disequilibrium and haplotype blocks based on VCF files
  ☆192Updated 4 months ago
• stephenturner / qqman
  An R package for creating Q-Q and manhattan plots from GWAS results
  ☆170Updated 3 weeks ago
• Illumina / ExpansionHunter
  A tool for estimating repeat sizes
  ☆199Updated last year
• nygenome / lancet
  Microassembly based somatic variant caller for NGS data
  ☆154Updated 3 years ago
• molgenis / systemsgenetics
  Generic Java genotype reader / writer, QTL mapping software, Strand alignment tool
  ☆176Updated 11 months ago
• GregoryFaust / samblaster
  samblaster: a tool to mark duplicates and extract discordant and split reads from sam files.
  ☆235Updated 4 years ago
• gatk-workflows / gatk4-germline-snps-indels
  Workflows for germline short variant discovery with GATK4
  ☆138Updated 4 years ago