Alternatives and similar repositories for svtools

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

• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 5 years ago
• zd1 / telseq
  A software for calculating telomere length
  ☆72Updated 7 years ago
• vaquerizaslab / tadtool
  TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.
  ☆48Updated 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, …
  ☆51Updated 2 months ago
• RahmanTeam / DECoN
  ☆54Updated 2 years ago
• fritzsedlazeck / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆48Updated 5 years ago
• dixonlab / hic_breakfinder
  ☆37Updated 6 years ago
• niu-lab / msisensor-ct
  Microsatellite instability (MSI) detection for cfDNA samples.
  ☆20Updated 4 years ago
• bcgsc / HLAminer
  ⛏ HLA predictions from NGS shotgun data
  ☆55Updated 6 months ago
• ikalatskaya / ISOWN
  ☆46Updated 6 years ago
• TomSkelly / MatchAnnot
  Python scripts for matching output of Pacific Biosciences IsoSeq RNA-seq pipeline to an annotation file.
  ☆23Updated 10 years ago
• zeeev / mergeSVcallers
  heuristics to merge structural variant calls in VCF format.
  ☆38Updated 9 years ago
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆51Updated 2 years ago
• Xinglab / lr2rmats
  Long read to rMATS
  ☆32Updated 2 years ago
• hall-lab / sv-pipeline
  Pipeline for structural variation detection in cohorts
  ☆52Updated 4 years ago
• adamewing / tldr
  Identify and annotate TE-mediated insertions in long-read sequence data
  ☆46Updated 5 months ago
• WGLab / LIQA
  Long-read Isoform Quantification and Analysis
  ☆38Updated 8 months ago
• TheJacksonLaboratory / SVE
  ☆51Updated 6 years ago
• LappalainenLab / lorals
  ☆38Updated 2 years ago
• ccagc / QDNAseq
  QDNAseq package for Bioconductor
  ☆53Updated last year
• hangelwen / miR-PREFeR
  microRNA PREdiction From small RNA-seq data
  ☆29Updated 7 years ago
• DecodeGenetics / svimmer
  Structural variant merging tool
  ☆57Updated last year
• dnaase / Bis-tools
  A collection of tools to deal with Bisulfite-seq/NOMe-seq (SNP/Methylation calling: BisSNP; HMM segmentation: DMNTools; Visualization/Clu…
  ☆32Updated 4 years ago
• khuang28jhu / bs3
  BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.
  ☆29Updated 6 years ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆64Updated last year
• hellbelly / BS-Snper
  ☆38Updated 4 years ago
• girirajanlab / CN_Learn
  CN-Learn
  ☆30Updated 5 years ago
• zyndagj / BSMAPz
  Updated and optimized fork of BSMAP
  ☆23Updated 4 years ago
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated last year
• ENCODE-DCC / wgbs-pipeline
  ENCODE whole-genome bisulfite sequencing (WGBS) pipeline
  ☆32Updated 3 years ago