Alternatives and similar repositories for phasing

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

• talkowski-lab / svtk
  ☆35Updated 4 years ago
• PacificBiosciences / svpack
  Structural variant (SV) analysis tools
  ☆40Updated last year
• jbelyeu / SV-plaudit
  Pipeline for structural variant image curation and analysis.
  ☆49Updated 4 years ago
• vibansal / hapcut
  program for haplotype phasing from sequence reads and related tools
  ☆25Updated 7 years ago
• brwnj / covviz
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆58Updated 3 years ago
• hall-lab / sv-pipeline
  Pipeline for structural variation detection in cohorts
  ☆52Updated 4 years ago
• ljdursi / mergevcf
  Python package and routines for merging VCF files
  ☆29Updated 4 years ago
• andrewSharo / StrVCTVRE
  StrVCTVRE, a structural variant classifier for exonic deletions and duplications
  ☆19Updated 2 years ago
• TheJacksonLaboratory / SVE
  ☆51Updated 6 years ago
• zeeev / mergeSVcallers
  heuristics to merge structural variant calls in VCF format.
  ☆38Updated 9 years ago
• gymrek-lab / EnsembleTR
  Tools for merging Tandem Repeat VCF files
  ☆37Updated 8 months ago
• mebbert / Dark_and_Camouflaged_genes
  ☆24Updated 7 months ago
• Rosemeis / HaploNet
  Haplotype and population structure inference using neural networks.
  ☆27Updated last year
• VCCRI / SVPV
  Structural Variant Prediction Viewer
  ☆35Updated 8 years ago
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆51Updated 6 years ago
• kehrlab / PopDel
  Population-wide Deletion Calling
  ☆35Updated 9 months ago
• DecodeGenetics / popSTR
  PopSTR - A Population based microsatellite genotyper
  ☆32Updated 2 years ago
• gymrek-lab / TRTools
  Toolkit for genome-wide analysis of tandem repeats
  ☆58Updated 2 months ago
• langmead-lab / reference_flow
  Reducing reference bias using multiple population reference genomes
  ☆34Updated last year
• mskilab-org / gGnome
  R API for browsing, analyzing, and manipulating reference-aligned genome graphs in a GenomicRanges framework
  ☆41Updated 2 weeks ago
• rdemolgen / SavvySuite
  Suite of tools for analysing off-target reads to find CNVs, homozygous regions, and shared haplotypes
  ☆31Updated 5 months ago
• HurlesGroupSanger / indelible
  Structural Variation breakpoint discovery via adaptive learning
  ☆16Updated 2 years ago
• lganel / SVScore
  Prioritize structural variants based on CADD scores
  ☆29Updated 5 years ago
• talkowski-lab / gnomad-sv-pipeline
  Code and custom scripts relevant to gnomAD-SV (Collins*, Brand*, et al., 2020)
  ☆37Updated 5 years ago
• EichlerLab / smrtsv2
  Structural variant caller
  ☆55Updated 4 years ago
• oscarlr / MsPAC
  Phase reads, assemble haplotypes and detect SVs
  ☆19Updated 5 years ago
• llecompte / SVJedi
  SV genotyping with long reads
  ☆40Updated 2 years ago
• ptrebert / project-diploid-assembly
  Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data
  ☆16Updated last year
• YingZhou001 / Immuannot
  Immuological gene typing and annotation for genome assembly
  ☆38Updated 10 months ago
• Illumina / witty.er
  What is true, thank you, ernestly. A large variant benchmarking tool analogous to hap.py for small variants.
  ☆36Updated 2 years ago