Alternatives and similar repositories for svim

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

• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆154Updated 4 months ago
• nanoporetech / pipeline-structural-variation
  Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data
  ☆114Updated 3 years ago
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆217Updated 6 months ago
• marbl / SALSA
  SALSA: A tool to scaffold long read assemblies with Hi-C data
  ☆187Updated last year
• EichlerLab / pav
  Phased assembly variant caller
  ☆121Updated 7 months ago
• malonge / RaGOO
  RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag
  ☆172Updated 4 years ago
• eblerjana / pangenie
  Pangenome-based genome inference
  ☆130Updated 3 weeks ago
• nanoporetech / rerio
  Research release basecalling models and configurations
  ☆113Updated last month
• marcelauliano / MitoHiFi
  Find, circularise and annotate mitogenome from PacBio assemblies
  ☆185Updated 2 months ago
• informationsea / transanno
  accurate LiftOver tool for new genome assemblies
  ☆132Updated 11 months ago
• PacificBiosciences / pb-CpG-tools
  Collection of tools for the analysis of CpG data
  ☆86Updated last week
• PacificBiosciences / trgt
  Tandem repeat genotyping and visualization from PacBio HiFi data
  ☆119Updated 2 months ago
• medvedevgroup / SibeliaZ
  A fast whole-genome aligner based on de Bruijn graphs
  ☆151Updated last week
• KolmogorovLab / Severus
  A tool for somatic structural variant calling using long reads
  ☆138Updated last week
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆170Updated last year
• xiaochuanle / NECAT
  Nanopore data assembler
  ☆157Updated 3 years ago
• twolinin / longphase
  ☆113Updated 2 months ago
• marbl / ModDotPlot
  ☆151Updated 2 months ago
• eldariont / svim-asm
  Structural Variant Identification Method using Genome Assemblies
  ☆121Updated 2 years ago
• HuiyangYu / PanDepth
  An ultra-fast and efficient genomic tool for coverage calculation
  ☆152Updated 3 months ago
• bergmanlab / mcclintock
  Meta-pipeline to identify transposable element insertions using next generation sequencing data
  ☆100Updated last month
• wdecoster / cramino
  A *fast* tool for BAM/CRAM quality evaluation, intended for long reads
  ☆155Updated last month
• MariaNattestad / Assemblytics
  Assemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference gen…
  ☆141Updated this week
• mroosmalen / nanosv
  SV caller for nanopore data
  ☆91Updated 5 years ago
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆118Updated 3 months ago
• Dfam-consortium / TETools
  Dfam Transposable Element Tools Docker container.
  ☆95Updated 2 weeks ago
• ruanjue / smartdenovo
  Ultra-fast de novo assembler using long noisy reads
  ☆135Updated 4 years ago
• c-zhou / yahs
  Yet another Hi-C scaffolding tool
  ☆154Updated 8 months ago
• nanoporetech / pychopper
  A tool to identify, orient, trim and rescue full length cDNA reads
  ☆82Updated 3 years ago
• PacificBiosciences / pbmm2
  A minimap2 frontend for PacBio native data formats
  ☆201Updated 4 months ago