Alternatives and similar repositories for svtools:

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

• GeneDx / scramble
  ☆39Updated 9 months ago
• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 4 years ago
• hall-lab / sv-pipeline
  Pipeline for structural variation detection in cohorts
  ☆49Updated 3 years ago
• deepomicslab / SpecHLA
  SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, …
  ☆41Updated last week
• zeeev / mergeSVcallers
  heuristics to merge structural variant calls in VCF format.
  ☆36Updated 8 years ago
• babelomics / SMAca
  SMN1 copy-number and sequence variant analysis from next generation sequencing data
  ☆22Updated last year
• WGLab / LIQA
  Long-read Isoform Quantification and Analysis
  ☆39Updated last month
• fakedrtom / SVAFotate
  ☆39Updated 5 months ago
• sfu-compbio / sinvict
  SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA
  ☆27Updated 4 years ago
• ArkingLab / MitoHPC
  ☆21Updated 10 months ago
• fritzsedlazeck / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆46Updated 4 years ago
• niu-lab / msisensor-ct
  Microsatellite instability (MSI) detection for cfDNA samples.
  ☆19Updated 3 years ago
• ChrisMaherLab / ClonEvol
  ☆13Updated 7 years ago
• marvin-jens / find_circ
  tools to find circRNAs in RNA-seq data
  ☆42Updated 7 years ago
• cphgeno / CNVbench
  Benchmarking of CNV calling tools
  ☆18Updated 5 years ago
• cortes-ciriano-lab / ReConPlot
  ☆21Updated last month
• adamewing / tldr
  Identify and annotate TE-mediated insertions in long-read sequence data
  ☆41Updated last year
• Illumina / Gauchian
  A variant caller for the GBA gene using WGS data
  ☆21Updated 6 months ago
• dixonlab / hic_breakfinder
  ☆35Updated 5 years ago
• pughlab / ConsensusCruncher
  ConsensusCruncher is a tool that suppresses errors in next-generation sequencing data by using unique molecular identifiers (UMIs) to ama…
  ☆21Updated 2 years ago
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆44Updated 2 years ago
• zyndagj / BSMAPz
  Updated and optimized fork of BSMAP
  ☆22Updated 4 years ago
• TomSkelly / MatchAnnot
  Python scripts for matching output of Pacific Biosciences IsoSeq RNA-seq pipeline to an annotation file.
  ☆23Updated 9 years ago
• Jeltje / varscan2
  Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2
  ☆29Updated 6 years ago
• DecodeGenetics / svimmer
  Structural variant merging tool
  ☆49Updated 5 months ago
• mhguo1 / TRAPD
  Burden testing against public controls
  ☆50Updated 11 months ago
• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 4 years ago
• LappalainenLab / lorals
  ☆33Updated last year
• RahmanTeam / DECoN
  ☆52Updated 2 years ago
• AmpliconSuite / CoRAL
  Reconstruction of focal amplifications with long reads
  ☆18Updated last week