Alternatives and similar repositories for pgv

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

• DecodeGenetics / read_haps
  Detects human contamination in bam files
  ☆16Updated 5 years ago
• edawson / svaha2
  Linear-time, low-memory construction of variation graphs
  ☆20Updated 5 years ago
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated 2 weeks ago
• aganezov / RCK
  RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes
  ☆18Updated 5 years 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
• DecodeGenetics / graphtyper-pipelines
  Recommended Graphtyper pipelines
  ☆15Updated 4 years ago
• collaborativebioinformatics / GeneVar
  ☆12Updated 4 years ago
• jbelyeu / unfazed
  Unfazed by genomic variant phasing
  ☆27Updated last year
• Parsoa / Nebula
  Ultra-efficient mapping-free structural variation genotyper
  ☆20Updated 4 years ago
• ssadedin / ximmer
  Ximmer is a system for CNV calling on exome and targeted genomic sequencing
  ☆19Updated last month
• ma-compbio / Weaver
  Allele-Specific Quantification of Structural Variations in Cancer Genomes
  ☆18Updated 6 years ago
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆26Updated last year
• edawson / svaha
  Convert structural variants to sequence graphs [ VCF + FASTA ---> GFA ]
  ☆11Updated last year
• medvedevgroup / vargeno
  Towards fast and accurate SNP genotyping from whole genome sequencing data for bedside diagnostics.
  ☆22Updated 6 years ago
• uclahs-cds / tool-NFTest
  CLI to automate Nextflow pipeline testing
  ☆12Updated last week
• dnanexus / IndexTools
  IndexTools is a toolkit for extremely fast NGS analysis based on index files.
  ☆17Updated 3 years ago
• DCGenomics / DangerTrack
  ☆13Updated 8 years ago
• mchaisso / mcutils
  ☆12Updated 3 months ago
• langmead-lab / reference_flow
  Reducing reference bias using multiple population reference genomes
  ☆34Updated last year
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 4 years ago
• richarddurbin / syng
  syncmer graphs, and perhaps other sorts of sequence graphs
  ☆24Updated last month
• bahlolab / superSTR
  A lightweight, alignment-free utility for detecting repeat-containing reads in short-read WGS, WES and RNA-seq data.
  ☆18Updated 2 months ago
• KiddLab / QuicK-mer2
  ☆11Updated 2 years ago
• mlinderm / npsv
  Non-parametric structural variant genotyper
  ☆15Updated 4 years 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
• lh3 / unicall
  A wrapper for calling small variants from human germline high-coverage single-sample Illumina data
  ☆14Updated 6 years ago
• HurlesGroupSanger / indelible
  Structural Variation breakpoint discovery via adaptive learning
  ☆16Updated 2 years ago
• edawson / mkmh
  Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.
  ☆24Updated 4 years ago
• DecodeGenetics / LRcaller
  ☆16Updated 3 years ago
• fulcrumgenomics / fgsv
  Tools to gather evidence for structural variation via breakpoint detection.
  ☆19Updated last week