Alternatives and similar repositories for PALMER

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

• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 5 years ago
• zeeev / mergeSVcallers
  heuristics to merge structural variant calls in VCF format.
  ☆36Updated 8 years ago
• mrvollger / SDA
  Segmental Duplication Assembler (SDA).
  ☆44Updated 2 years ago
• jbelyeu / SV-plaudit
  Pipeline for structural variant image curation and analysis.
  ☆48Updated 3 years ago
• llecompte / SVJedi
  SV genotyping with long reads
  ☆39Updated 2 years ago
• lh3 / htsbox
  My experimental tools on top of htslib. NOT OFFICIAL!!!
  ☆56Updated 2 years ago
• EichlerLab / smrtsv2
  Structural variant caller
  ☆55Updated 3 years ago
• arnederoeck / NanoSatellite
  Dynamic time warping of Oxford Nanopore squiggle data to characterize tandem repeats.
  ☆32Updated 5 years ago
• vibansal / hapcut
  program for haplotype phasing from sequence reads and related tools
  ☆25Updated 6 years ago
• fritzsedlazeck / SVCollector
  Method to optimally select samples for validation and resequencing
  ☆28Updated 4 years ago
• mcfrith / tandem-genotypes
  ☆48Updated last year
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆49Updated 5 years ago
• HipSTR-Tool / HipSTR
  Genotype and phase short tandem repeats using Illumina whole-genome sequencing data
  ☆32Updated 4 years ago
• MeHelmy / princess
  ☆81Updated 6 months ago
• kehrlab / PopDel
  Population-wide Deletion Calling
  ☆35Updated 4 months ago
• brwnj / covviz
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆58Updated 3 years ago
• PacificBiosciences / FALCON_unzip
  Making diploid assembly becomes common practice for genomic study
  ☆30Updated 7 years ago
• oscarlr / MsPAC
  Phase reads, assemble haplotypes and detect SVs
  ☆19Updated 4 years ago
• ljdursi / mergevcf
  Python package and routines for merging VCF files
  ☆29Updated 4 years ago
• jkbonfield / crumble
  Exploration of controlled loss of quality values for compressing CRAM files
  ☆35Updated 2 years ago
• EichlerLab / svpop
  Variant annotation and merging pipeline
  ☆39Updated last month
• EichlerLab / pacbio_variant_caller
  SMRT-SV: Structural variant and indel caller for PacBio reads
  ☆28Updated 6 years ago
• andrewSharo / StrVCTVRE
  StrVCTVRE, a structural variant classifier for exonic deletions and duplications
  ☆19Updated last year
• 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
• benedictpaten / marginAlign
  UCSC Nanopore
  ☆43Updated 6 years ago
• TheJacksonLaboratory / SVE
  ☆51Updated 6 years ago
• jfarek / xatlas
  ☆31Updated 3 years ago
• benoukraflab / NanoVar---archived
  Archived version 1.0.2
  ☆16Updated 5 years ago
• benedictpaten / marginPhase
  ☆34Updated 5 years ago
• Illumina / witty.er
  What is true, thank you, ernestly. A large variant benchmarking tool analogous to hap.py for small variants.
  ☆33Updated last year