Alternatives and similar repositories for SVE

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

• EichlerLab / smrtsv2
  Structural variant caller
  ☆54Updated 3 years ago
• DecodeGenetics / svimmer
  Structural variant merging tool
  ☆49Updated 9 months ago
• Xinglab / lr2rmats
  Long read to rMATS
  ☆31Updated 2 years ago
• zeeev / mergeSVcallers
  heuristics to merge structural variant calls in VCF format.
  ☆36Updated 8 years ago
• wdecoster / nano-snakemake
  A snakemake pipeline for SV analysis from nanopore genome sequencing
  ☆51Updated 5 years ago
• jbelyeu / SV-plaudit
  Pipeline for structural variant image curation and analysis.
  ☆48Updated 3 years ago
• chrisamiller / readDepth
  R package for inferring copy number from read depth
  ☆32Updated 2 years ago
• scottgigante / haplotyped-methylome
  Reproducibility workflow for Gigante et al., 2018: Using long-read sequencing to detect imprinted DNA methylation
  ☆23Updated 6 years ago
• hall-lab / sv-pipeline
  Pipeline for structural variation detection in cohorts
  ☆49Updated 3 years ago
• mskilab-org / gGnome
  R API for browsing, analyzing, and manipulating reference-aligned genome graphs in a GenomicRanges framework
  ☆40Updated last week
• czc / nb_distribution
  novoBreak: local assembly for breakpoint detection in cancer genomes
  ☆26Updated 7 years ago
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆49Updated 5 years ago
• tk2 / RetroSeq
  RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference…
  ☆66Updated 2 years ago
• bioinform / metasv
  MetaSV: An accurate and integrative structural-variant caller for next generation sequencing
  ☆56Updated 7 years ago
• DecodeGenetics / popSTR
  PopSTR - A Population based microsatellite genotyper
  ☆33Updated last year
• mobidic / knotAnnotSV
  A simple script to create a customizable html file from an AnnotSV output.
  ☆18Updated last year
• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 5 years ago
• ctsa / svtools
  Tools for processing and analyzing structural variants.
  ☆33Updated 9 years ago
• talkowski-lab / svtk
  ☆35Updated 4 years ago
• liusihan / seGMM
  A new tool to infer sex from massively parallel sequencing data.
  ☆17Updated 3 weeks ago
• kehrlab / PopDel
  Population-wide Deletion Calling
  ☆35Updated last month
• VCCRI / SVPV
  Structural Variant Prediction Viewer
  ☆34Updated 7 years ago
• SdeBlank / NanoFG
  Third-generation fusion gene detection
  ☆14Updated last year
• lganel / SVScore
  Prioritize structural variants based on CADD scores
  ☆29Updated 5 years ago
• TheJacksonLaboratory / Picky
  Structural Variants Pipeline for Long Reads
  ☆44Updated 6 years ago
• nspies / svviz2
  for visual evaluation of read support for structural variation
  ☆54Updated last year
• llecompte / SVJedi
  SV genotyping with long reads
  ☆39Updated last year
• YingZhou001 / Immuannot
  Immuological gene typing and annotation for genome assembly
  ☆37Updated 2 months ago
• biocorecrg / MOP2
  Master of Pores 2
  ☆23Updated 6 months ago
• xuchang116 / smCounter
  smCounter: a versatile UMI-aware variant caller to detect both somatic and germline SNVs and indels. Published in article "Detecting very…
  ☆20Updated 6 years ago