Alternatives and similar repositories for cuteSV:

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

• fritzsedlazeck / SURVIVOR
  Toolset for SV simulation, comparison and filtering
  ☆378Updated last year
• a-slide / pycoQC
  pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies b…
  ☆277Updated 6 months ago
• PacificBiosciences / pbmm2
  A minimap2 frontend for PacBio native data formats
  ☆192Updated 2 months ago
• wdecoster / nanofilt
  Filtering and trimming of long read sequencing data
  ☆205Updated 2 years ago
• marbl / Winnowmap
  Long read / genome alignment software
  ☆285Updated 6 months ago
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆222Updated 4 months ago
• dfguan / purge_dups
  haplotypic duplication identification tool
  ☆238Updated last year
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆211Updated 4 months ago
• wdecoster / nanopack
  An overview of all nanopack tools
  ☆243Updated last year
• Dfam-consortium / RepeatModeler
  De-Novo Repeat Discovery Tool
  ☆209Updated last week
• HKU-BAL / Clair3
  Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
  ☆276Updated 3 weeks ago
• marbl / merqury
  k-mer based assembly evaluation
  ☆309Updated 10 months ago
• vibansal / HapCUT2
  software tools for haplotype assembly from sequence data
  ☆217Updated 3 months ago
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆145Updated 2 months ago
• malonge / RaGOO
  RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag
  ☆173Updated 3 years ago
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆149Updated 2 years ago
• PASApipeline / PASApipeline
  PASA software
  ☆188Updated 2 months ago
• Dfam-consortium / RepeatMasker
  RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
  ☆252Updated this week
• adamewing / methylartist
  Tools for plotting methylation data in various ways
  ☆147Updated 2 weeks ago
• xiaochuanle / NECAT
  Nanopore data assembler
  ☆151Updated 3 years ago
• BGI-Qingdao / TGS-GapCloser
  A gap-closing software tool that uses long reads to enhance genome assembly.
  ☆206Updated 8 months ago
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆212Updated 3 weeks ago
• mahulchak / quickmerge
  A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.
  ☆205Updated 2 years ago
• ACEnglish / truvari
  Structural variant toolkit for VCFs
  ☆356Updated this week
• tpoorten / dotPlotly
  Generate an interactive dot plot from mummer or minimap alignments
  ☆200Updated last year
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆162Updated last year
• brentp / smoove
  structural variant calling and genotyping with existing tools, but, smoothly.
  ☆250Updated 10 months ago
• wdecoster / nanocomp
  Comparison of multiple long read datasets
  ☆128Updated last month
• rrwick / Filtlong
  quality filtering tool for long reads
  ☆329Updated last year
• marcelauliano / MitoHiFi
  Find, circularise and annotate mitogenome from PacBio assemblies
  ☆181Updated 2 months ago