Alternatives and similar repositories for svtyper

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

• hall-lab / svtools
  Tools for processing and analyzing structural variants.
  ☆151Updated 3 years ago
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆215Updated 5 months ago
• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆115Updated 10 months ago
• nanoporetech / pipeline-structural-variation
  Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data
  ☆114Updated 3 years ago
• KolmogorovLab / Severus
  A tool for somatic structural variant calling using long reads
  ☆134Updated last month
• mozack / abra2
  ABRA2
  ☆92Updated 2 years ago
• nanoporetech / pychopper
  A tool to identify, orient, trim and rescue full length cDNA reads
  ☆82Updated 2 years ago
• Griffan / VerifyBamID
  VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.
  ☆97Updated last year
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆149Updated 3 months ago
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆246Updated last week
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆150Updated 2 years ago
• mroosmalen / nanosv
  SV caller for nanopore data
  ☆91Updated 4 years ago
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆117Updated last month
• Illumina / paragraph
  Graph realignment tools for structural variants
  ☆156Updated 2 years ago
• parklab / bamsnap
  ☆120Updated 6 months ago
• marbl / SALSA
  SALSA: A tool to scaffold long read assemblies with Hi-C data
  ☆185Updated last year
• twolinin / longphase
  ☆112Updated last month
• zstephens / neat-genreads
  NEAT read simulation tools
  ☆98Updated 2 years ago
• dnanexus-archive / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆101Updated 4 years ago
• nhansen / SVanalyzer
  Tools for the analysis of structural variation in genomes
  ☆79Updated last year
• BoevaLab / FREEC
  Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
  ☆161Updated 9 months ago
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆97Updated last year
• genome / breakdancer
  SV detection from paired end reads mapping
  ☆117Updated 5 years ago
• brentp / duphold
  don't get DUP'ed or DEL'ed by your putative SVs.
  ☆106Updated 4 years ago
• nanoporetech / pipeline-transcriptome-de
  Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
  ☆108Updated 2 years ago
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆188Updated this week
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆164Updated last year
• eldariont / svim
  Structural Variant Identification Method using Long Reads
  ☆172Updated 3 years ago
• tobiasrausch / alfred
  BAM Statistics, Feature Counting and Annotation
  ☆150Updated 3 months ago
• EichlerLab / pav
  Phased assembly variant caller
  ☆116Updated 6 months ago