Alternatives and similar repositories for cuteSV

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

• a-slide / pycoQC
  pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies b…
  ☆284Updated last year
• fritzsedlazeck / SURVIVOR
  Toolset for SV simulation, comparison and filtering
  ☆407Updated 2 years ago
• vibansal / HapCUT2
  software tools for haplotype assembly from sequence data
  ☆226Updated 11 months ago
• BGI-Qingdao / TGS-GapCloser
  A gap-closing software tool that uses long reads to enhance genome assembly.
  ☆229Updated last year
• Dfam-consortium / RepeatMasker
  RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
  ☆288Updated last month
• oushujun / LTR_retriever
  LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also…
  ☆216Updated 6 months ago
• wdecoster / nanopack
  An overview of all nanopack tools
  ☆276Updated 2 years ago
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆167Updated 2 years ago
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆239Updated last year
• ACEnglish / truvari
  Structural variant toolkit for VCFs
  ☆394Updated last month
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆236Updated last year
• dfguan / purge_dups
  haplotypic duplication identification tool
  ☆274Updated 2 months ago
• wdecoster / nanofilt
  Filtering and trimming of long read sequencing data
  ☆212Updated 3 years ago
• marbl / merqury
  k-mer based assembly evaluation
  ☆335Updated last year
• marbl / Winnowmap
  Long read / genome alignment software
  ☆310Updated last month
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆160Updated 10 months ago
• lh3 / gfatools
  Tools for manipulating sequence graphs in the GFA and rGFA formats
  ☆246Updated last month
• PASApipeline / PASApipeline
  PASA software
  ☆198Updated 11 months ago
• Dfam-consortium / RepeatModeler
  De-Novo Repeat Discovery Tool
  ☆230Updated 5 months ago
• HKU-BAL / Clair3
  Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
  ☆321Updated 3 months ago
• 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 r…
  ☆306Updated last year
• cgroza / GraffiTE
  GraffiTE is a pipeline that finds polymorphic transposable elements in genome assemblies and/or long reads, and genotypes the discovered …
  ☆227Updated this week
• lbcb-sci / racon
  Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads
  ☆235Updated 2 years ago
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆285Updated 11 months ago
• tpoorten / dotPlotly
  Generate an interactive dot plot from mummer or minimap alignments
  ☆210Updated 2 years ago
• wdecoster / chopper
  ☆227Updated last month
• nanoporetech / pipeline-structural-variation
  Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data
  ☆115Updated 4 years ago
• lastz / lastz
  Program for aligning DNA sequences, a pairwise aligner.
  ☆239Updated 7 months ago
• Benson-Genomics-Lab / TRF
  Tandem Repeats Finder: a program to analyze DNA sequences
  ☆198Updated 3 years ago
• PacificBiosciences / pbmm2
  A minimap2 frontend for PacBio native data formats
  ☆208Updated 2 months ago