Alternatives and similar repositories for PALMER

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

• vibansal / hapcut
  program for haplotype phasing from sequence reads and related tools
  ☆25Updated 6 years ago
• brwnj / covviz
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆57Updated 3 years ago
• zeeev / mergeSVcallers
  heuristics to merge structural variant calls in VCF format.
  ☆36Updated 8 years ago
• arnederoeck / NanoSatellite
  Dynamic time warping of Oxford Nanopore squiggle data to characterize tandem repeats.
  ☆32Updated 5 years ago
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆49Updated 5 years ago
• lh3 / htsbox
  My experimental tools on top of htslib. NOT OFFICIAL!!!
  ☆56Updated last year
• GregoryFaust / SVsim
  SVsim: a tool that generates synthetic Structural Variant calls as benchmarks to test/evaluate SV calling pipelines.
  ☆17Updated 7 years ago
• jbelyeu / SV-plaudit
  Pipeline for structural variant image curation and analysis.
  ☆48Updated 3 years ago
• mcfrith / tandem-genotypes
  ☆48Updated last year
• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 5 years ago
• fritzsedlazeck / SVCollector
  Method to optimally select samples for validation and resequencing
  ☆28Updated 4 years ago
• kehrlab / PopDel
  Population-wide Deletion Calling
  ☆35Updated 3 months ago
• MeHelmy / princess
  ☆80Updated 4 months ago
• uio-bmi / two_step_graph_mapper
  ☆21Updated 5 years ago
• mrvollger / SDA
  Segmental Duplication Assembler (SDA).
  ☆44Updated 2 years ago
• benedictpaten / marginPhase
  ☆34Updated 5 years ago
• smehringer / SViper
  Swipe your Structural Variants called on long (ONT/PacBio) reads with short exact (Illumina) reads.
  ☆32Updated 2 years ago
• EichlerLab / smrtsv2
  Structural variant caller
  ☆54Updated 3 years ago
• arq5x / nanopore-scripts
  Various scripts and recipes for working with nanopore data
  ☆34Updated 9 years ago
• TheJacksonLaboratory / SVE
  ☆51Updated 5 years ago
• llecompte / SVJedi
  SV genotyping with long reads
  ☆39Updated 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
• HipSTR-Tool / HipSTR
  Genotype and phase short tandem repeats using Illumina whole-genome sequencing data
  ☆32Updated 4 years ago
• andrewSharo / StrVCTVRE
  StrVCTVRE, a structural variant classifier for exonic deletions and duplications
  ☆19Updated last year
• jason-weirather / AlignQC
  Long read alignment analysis. Generate a reports on sequence alignments for mappability vs read sizes, error patterns, annotations and r…
  ☆47Updated 6 years ago
• Nucleomics-VIB / bionano-tools
  Custom tools to 'facilitate' BioNano Genomics data analysis
  ☆33Updated 6 years ago
• oscarlr / MsPAC
  Phase reads, assemble haplotypes and detect SVs
  ☆19Updated 4 years ago
• jfarek / xatlas
  ☆30Updated 2 years ago
• ljdursi / mergevcf
  Python package and routines for merging VCF files
  ☆29Updated 4 years ago
• EichlerLab / svpop
  Variant annotation and merging pipeline
  ☆38Updated this week