Alternatives and similar repositories for SALSA:

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

• malonge / RaGOO
  RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag
  ☆173Updated 3 years ago
• tpoorten / dotPlotly
  Generate an interactive dot plot from mummer or minimap alignments
  ☆200Updated last year
• tangerzhang / ALLHiC
  ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data
  ☆176Updated 5 months ago
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆221Updated 3 months ago
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆210Updated 3 months ago
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆142Updated last month
• nanoporetech / pipeline-structural-variation
  Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data
  ☆114Updated 3 years ago
• MariaNattestad / Assemblytics
  Assemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference gen…
  ☆140Updated 5 months ago
• mahulchak / quickmerge
  A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.
  ☆206Updated 2 years ago
• nanoporetech / pychopper
  A tool to identify, orient, trim and rescue full length cDNA reads
  ☆81Updated 2 years ago
• marcelauliano / MitoHiFi
  Find, circularise and annotate mitogenome from PacBio assemblies
  ☆180Updated last month
• xiaochuanle / NECAT
  Nanopore data assembler
  ☆149Updated 3 years ago
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆160Updated last year
• rrwick / Deepbinner
  a signal-level demultiplexer for Oxford Nanopore reads
  ☆126Updated 4 years ago
• eldariont / svim
  Structural Variant Identification Method using Long Reads
  ☆170Updated 3 years ago
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆149Updated 2 years ago
• PacificBiosciences / pbmm2
  A minimap2 frontend for PacBio native data formats
  ☆190Updated last month
• TobyBaril / EarlGrey
  Earl Grey: A fully automated TE curation and annotation pipeline
  ☆165Updated last week
• eblerjana / pangenie
  Pangenome-based genome inference
  ☆128Updated this week
• ruanjue / smartdenovo
  Ultra-fast de novo assembler using long noisy reads
  ☆135Updated 4 years ago
• hewm2008 / NGenomeSyn
  Any Way to Show Multi genomic Synteny
  ☆178Updated last week
• bergmanlab / mcclintock
  Meta-pipeline to identify transposable element insertions using next generation sequencing data
  ☆98Updated last year
• informationsea / transanno
  accurate LiftOver tool for new genome assemblies
  ☆125Updated 8 months ago
• NAL-i5K / GFF3toolkit
  Python programs for processing GFF3 files
  ☆95Updated last year
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆210Updated last week
• KolmogorovLab / Severus
  A tool for somatic structural variant calling using long reads
  ☆126Updated last week
• huangnengCSU / compleasm
  A genome completeness evaluation tool based on miniprot
  ☆204Updated last month
• PASApipeline / PASApipeline
  PASA software
  ☆186Updated 2 months ago
• lh3 / pangene
  Constructing a pangenome gene graph
  ☆186Updated 2 weeks ago
• medvedevgroup / SibeliaZ
  A fast whole-genome aligner based on de Bruijn graphs
  ☆146Updated 2 months ago