Alternatives and similar repositories for haplogrep3

Users that are interested in haplogrep3 are comparing it to the libraries listed below

• genepi / haplocheck
  Phylogeny-based Contamination Detection in Mitochondrial and Whole-Genome Sequencing Studies
  ☆18Updated 2 years ago
• seppinho / mutserve
  mtDNA Variant Caller
  ☆34Updated 6 months ago
• GeneDx / scramble
  ☆39Updated last year
• marbl / HG002
  A complete diploid human genome
  ☆121Updated 6 months ago
• Illumina / Polaris
  Data and information about the Polaris study
  ☆53Updated 5 years ago
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆118Updated 3 months ago
• Illumina / REViewer
  A tool for visualizing alignments of reads in regions containing tandem repeats
  ☆86Updated last year
• human-pangenomics / hpp_production_workflows
  WDL’s and Dockerfiles for assembly QC process
  ☆67Updated last week
• nf-core / variantbenchmarking
  Pipeline to evaluate and validate the accuracy of variant calling methods in genomic research
  ☆31Updated this week
• fritzsedlazeck / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆48Updated 5 years ago
• vplagnol / ExomeDepth
  ExomeDepth R package for the detection of copy number variants in exomes and gene panels using high throughput DNA sequencing data.
  ☆71Updated 2 weeks ago
• tao-bioinfo / gff3sort
  GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools
  ☆51Updated 5 years ago
• brentp / duphold
  don't get DUP'ed or DEL'ed by your putative SVs.
  ☆106Updated 4 years ago
• genomic-medicine-sweden / nallo
  An analysis pipeline for long-reads from both PacBio and Oxford Nanopore Technologies (ONT), written in Nextflow.
  ☆32Updated this week
• yjx1217 / LRSDAY
  LRSDAY: Long-read Sequencing Data Analysis for Yeasts
  ☆31Updated last year
• KCCG / ClinSV
  Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data
  ☆72Updated 10 months ago
• gencorefacility / variant-calling-pipeline-gatk4
  Variant Calling Pipeline Using GATK4 and Nextflow
  ☆56Updated 2 years ago
• BimberLab / DISCVRSeq
  A collection of command line tools for working with sequencing data
  ☆51Updated last month
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆98Updated last year
• MikkelSchubert / adapterremoval
  AdapterRemoval v2 - rapid adapter trimming, identification, and read merging
  ☆113Updated last month
• compbiocore / VariantVisualization.jl
  Julia package powering VIVA, our tool for visualization of genomic variation data. Manual:
  ☆86Updated last year
• Genotek / ClassifyCNV
  ClassifyCNV: a tool for clinical annotation of copy-number variants
  ☆66Updated 2 years ago
• ryanlayer / stix
  Structural Variant Index
  ☆75Updated 7 months ago
• AndersenLab / VCF-kit
  VCF-kit: Assorted utilities for the variant call format
  ☆131Updated last week
• lpryszcz / bin
  My bioinfo toolbox
  ☆50Updated 5 months ago
• smithlabcode / preseq
  Software for predicting library complexity and genome coverage in high-throughput sequencing.
  ☆87Updated 8 months ago
• vembrane / vembrane
  vembrane filters VCF records using python expressions
  ☆62Updated this week
• pwwang / vcfstats
  Powerful statistics for VCF files
  ☆70Updated last week
• rrazaghi / modbamtools
  Set of tools to manipulate and visualize modified base bam files
  ☆56Updated 2 years ago
• Illumina / RepeatCatalogs
  ☆21Updated 3 years ago