Alternatives and similar repositories for hapcut

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

• benedictpaten / marginPhase
  ☆35Updated 5 years ago
• brwnj / covviz
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆58Updated 3 years ago
• Illumina / witty.er
  What is true, thank you, ernestly. A large variant benchmarking tool analogous to hap.py for small variants.
  ☆33Updated 2 years ago
• ljdursi / mergevcf
  Python package and routines for merging VCF files
  ☆29Updated 4 years ago
• zeeev / mergeSVcallers
  heuristics to merge structural variant calls in VCF format.
  ☆38Updated 9 years ago
• dillonl / graphite
  Graphite - Graph-based variant adjudication
  ☆28Updated 4 years ago
• ccgd-profile / BreaKmer
  A method to identify structural variation from sequencing data in target regions
  ☆32Updated 5 years ago
• jbelyeu / SV-plaudit
  Pipeline for structural variant image curation and analysis.
  ☆48Updated 3 years ago
• lh3 / rtgeval
  Wrapper for RTG's vcfeval; DEPRECATED!
  ☆21Updated 9 years ago
• lganel / SVScore
  Prioritize structural variants based on CADD scores
  ☆29Updated 5 years ago
• BilkentCompGen / hercules
  Profile HMM-based hybrid error correction algorithm for long reads
  ☆21Updated 7 years ago
• arq5x / nanopore-scripts
  Various scripts and recipes for working with nanopore data
  ☆34Updated 9 years ago
• jfarek / xatlas
  ☆31Updated 3 years ago
• lh3 / htsbox
  My experimental tools on top of htslib. NOT OFFICIAL!!!
  ☆58Updated 2 months ago
• VCCRI / SVPV
  Structural Variant Prediction Viewer
  ☆35Updated 8 years ago
• jasperlinthorst / reveal
  Graph based multi genome aligner
  ☆48Updated 4 years ago
• TheJacksonLaboratory / SVE
  ☆51Updated 6 years ago
• lbcb-sci / ra
  Assembler for raw de novo genome assembly of long uncorrected reads.
  ☆36Updated 5 years ago
• jason-weirather / AlignQC
  Long read alignment analysis. Generate a reports on sequence alignments for mappability vs read sizes, error patterns, annotations and r…
  ☆49Updated 7 years ago
• uio-bmi / two_step_graph_mapper
  ☆21Updated 6 years ago
• lh3 / sgdp-fermi
  FermiKit small variant calls for public SGDP samples
  ☆17Updated 9 years ago
• HipSTR-Tool / HipSTR
  Genotype and phase short tandem repeats using Illumina whole-genome sequencing data
  ☆32Updated 4 years ago
• PacificBiosciences / svpack
  Structural variant (SV) analysis tools
  ☆39Updated last year
• benedictpaten / marginAlign
  UCSC Nanopore
  ☆44Updated 6 years ago
• EichlerLab / smrtsv2
  Structural variant caller
  ☆55Updated 3 years ago
• mills-lab / svelter
  Approach to identify simple and complex structural genomic rearrangements using a randomized approach
  ☆21Updated 7 years ago
• mcfrith / tandem-genotypes
  ☆49Updated last year
• HongzheGuo / deBGA
  de Bruijn Graph-based read aligner
  ☆34Updated 7 years ago
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆50Updated 6 years ago
• grocsvs / grocsvs
  Genome-wide reconstruction of complex structural variants
  ☆39Updated 3 years ago