Alternatives and similar repositories for graphtyper

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

• vibansal / HapCUT2
  software tools for haplotype assembly from sequence data
  ☆218Updated 3 months ago
• hall-lab / svtyper
  Bayesian genotyper for structural variants
  ☆133Updated 4 years ago
• Illumina / paragraph
  Graph realignment tools for structural variants
  ☆156Updated 2 years ago
• hall-lab / svtools
  Tools for processing and analyzing structural variants.
  ☆151Updated 3 years ago
• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆115Updated 10 months ago
• adamewing / methylartist
  Tools for plotting methylation data in various ways
  ☆151Updated this week
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆215Updated 5 months ago
• marbl / SALSA
  SALSA: A tool to scaffold long read assemblies with Hi-C data
  ☆185Updated last year
• nanoporetech / pipeline-structural-variation
  Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data
  ☆114Updated 3 years ago
• brentp / smoove
  structural variant calling and genotyping with existing tools, but, smoothly.
  ☆252Updated 11 months ago
• KolmogorovLab / Severus
  A tool for somatic structural variant calling using long reads
  ☆134Updated last month
• AndersenLab / VCF-kit
  VCF-kit: Assorted utilities for the variant call format
  ☆130Updated last month
• mroosmalen / nanosv
  SV caller for nanopore data
  ☆91Updated 4 years ago
• parklab / bamsnap
  ☆120Updated 6 months ago
• MikkelSchubert / adapterremoval
  AdapterRemoval v2 - rapid adapter trimming, identification, and read merging
  ☆113Updated last week
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆149Updated 3 months ago
• BoevaLab / FREEC
  Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
  ☆161Updated 9 months ago
• milkschen / leviosam2
  Fast and accurate coordinate conversion between assemblies
  ☆113Updated 2 months ago
• Griffan / VerifyBamID
  VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.
  ☆97Updated last year
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆140Updated this week
• ComparativeGenomicsToolkit / hal
  Hierarchical Alignment Format
  ☆168Updated 5 months ago
• Kingsford-Group / scallop
  Scallop is a reference-based transcriptome assembler for RNA-seq
  ☆90Updated 4 years ago
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆117Updated last month
• brentp / duphold
  don't get DUP'ed or DEL'ed by your putative SVs.
  ☆106Updated 4 years ago
• epi2me-labs / wf-transcriptomes
  ☆94Updated 3 weeks ago
• zstephens / neat-genreads
  NEAT read simulation tools
  ☆98Updated 2 years ago
• human-pangenomics / hpp_pangenome_resources
  ☆114Updated last year
• broadinstitute / gatk-docs
  Documentation archive for GATK tools and workflows
  ☆85Updated 5 years ago
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆246Updated last week
• ChaissonLab / LRA
  Long read aligner
  ☆115Updated 2 years ago