structural-variations

There are 4 repositories under structural-variations topic.

• fritzsedlazeck / Sniffles

  Structural variation caller using third generation sequencing

  bioinformaticsstructural-variationsngm-lrpacbionanoporestructural-variationbioconda
  Language:Python 525

• Illumina / manta

  Structural variant and indel caller for mapped sequencing data

  bioinformaticsindelsstructural-variationstructural-variations
  Language:C++ 390

• fritzsedlazeck / SURVIVOR

  Toolset for SV simulation, comparison and filtering

  bioinformaticsstructural-variationssimulatorcomparisonsurvivorvcfbioconda
  Language:C++ 335

• philres / ngmlr

  NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on reads that span structural variations

  next-generation-sequencingpacbiooxford-nanoporemapperstructural-variationslong-readalignmentbiocondadocker
  Language:C++ 284

• walaj / svaba

  Structural variation and indel detection by local assembly

  indelsvariantsassembled-contigsstructural-variationsc-plus-plus
  Language:C++ 227

• starskyzheng / panpop

  Application of pan-genome for population

  bioinformaticsclusteringgenomicspopulation-geneticsstructural-variationsvcfpanpop
  Language:Perl 77

• czc / nb_distribution

  novoBreak: local assembly for breakpoint detection in cancer genomes

  bioinformatics-pipelinestructural-variations
  Language:Perl 26

• pk7zuva / Circle_finder

  Micro DNA identification

  circular-dnagenome-duplicationstructural-variationsmicrohomologymicrodna
  Language:Shell 21

• fritzsedlazeck / SURVIVOR_ant

  A framework to annotate SVs with previous known SVs (vcf file) and or with genomic features (gff and or bed files)

  annotationstructural-variationssvsvcf
  Language:HTML 12

• micahvista / MAMnet

  MAMnet uses a deep learning network to call genetic variants from third generation DNA sequencing data.

  bioinformaticsgenomicsstructural-variation-callingstructural-variationsdeep-learningdeep-neural-networks
  Language:Python 7

• jasonwong-lab / smk_sv

  A snakemake pipeline to call structure variants from ONT data

  long-read-sequencingoxford-nanopore-sequencingstructural-variantsstructural-variation-callingbioinformaticsbioinformatics-pipelinestructural-variations
  Language:Python 2

• vborjesson / SVenX

  Pipeline for SV detection using 10X genomics data

  pipelinestructural-variations10x-genomics
  Language:Python 2

• meiers / thesis

  PhD thesis

  structural-variationsgenomicsdnasingle-cell-genomics
  Language:TeX 1