Alternatives and similar repositories for pgv

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

• edawson / svaha2
  Linear-time, low-memory construction of variation graphs
  ☆20Updated 5 years ago
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated 9 months ago
• aganezov / RCK
  RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes
  ☆17Updated 5 years ago
• DecodeGenetics / read_haps
  Detects human contamination in bam files
  ☆16Updated 4 years ago
• collaborativebioinformatics / GeneVar
  ☆12Updated 3 years ago
• jts / mbtools
  ☆14Updated last year
• mchaisso / mcutils
  ☆12Updated 3 months ago
• VCCRI / dv-trio
  dv-trio provides a pipeline to call variants for a trio (father-mother-child) using DeepVariants [1]. Genomic Variant Calling Files (gVCF…
  ☆11Updated 4 years ago
• richarddurbin / syng
  syncmer graphs, and perhaps other sorts of sequence graphs
  ☆21Updated 4 months ago
• DecodeGenetics / graphtyper-pipelines
  Recommended Graphtyper pipelines
  ☆14Updated 4 years ago
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆24Updated last year
• Parsoa / Nebula
  Ultra-efficient mapping-free structural variation genotyper
  ☆19Updated 4 years ago
• jbelyeu / unfazed
  Unfazed by genomic variant phasing
  ☆27Updated last year
• collaborativebioinformatics / nibSV
  ☆9Updated 3 years ago
• uclahs-cds / tool-NFTest
  CLI to automate Nextflow pipeline testing
  ☆12Updated last month
• edawson / svaha
  Convert structural variants to sequence graphs [ VCF + FASTA ---> GFA ]
  ☆12Updated last year
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 3 years ago
• CMU-SAFARI / FastRemap
  FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…
  ☆26Updated 2 years ago
• KiddLab / QuicK-mer2
  ☆11Updated 2 years ago
• DecodeGenetics / LRcaller
  ☆16Updated 3 years ago
• DCGenomics / DangerTrack
  ☆13Updated 8 years ago
• hwanglab / divine
  Divine: Prioritizing Genes for Rare Mendelian Disease in Whole Exome Sequencing Data
  ☆13Updated 6 years ago
• ssadedin / ximmer
  Ximmer is a system for CNV calling on exome and targeted genomic sequencing
  ☆19Updated 5 months ago
• gui11aume / mmp
  MEM mapper prototype
  ☆13Updated 4 years ago
• alshai / rowbowt
  run-length BWT tools for genomic sequences
  ☆19Updated 3 years ago
• HurlesGroupSanger / indelible
  Structural Variation breakpoint discovery via adaptive learning
  ☆15Updated 2 years ago
• kcleal / svbench
  Benchmark structural variant calls against a reference set
  ☆17Updated 9 months ago
• fritzsedlazeck / SURVIVOR_ant
  A framework to annotate SVs with previous known SVs (vcf file) and or with genomic features (gff and or bed files)
  ☆13Updated 7 years ago
• sinamajidian / phaseme
  A tool set to assess the quality of the per read phasing and reduce the errors.
  ☆12Updated 5 years ago
• ma-compbio / Weaver
  Allele-Specific Quantification of Structural Variations in Cancer Genomes
  ☆18Updated 6 years ago