Alternatives and similar repositories for TOGA:

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

• tpoorten / dotPlotly
  Generate an interactive dot plot from mummer or minimap alignments
  ☆194Updated last year
• jtlovell / GENESPACE
  ☆196Updated 5 months ago
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆130Updated 3 years ago
• hewm2008 / NGenomeSyn
  Any Way to Show Multi genomic Synteny
  ☆166Updated 2 months ago
• wdecoster / chopper
  ☆160Updated 4 months ago
• TobyBaril / EarlGrey
  Earl Grey: A fully automated TE curation and annotation pipeline
  ☆152Updated this week
• nanoporetech / modkit
  A bioinformatics tool for working with modified bases
  ☆163Updated last week
• moiexpositoalonsolab / grenepipe
  A flexible, scalable, and reproducible pipeline to automate variant calling from raw sequence reads, with lots of bells and whistles.
  ☆95Updated last month
• PacificBiosciences / pb-assembly
  PacBio Assembly Tool Suite: Reads in ⇨ Assembly out
  ☆114Updated 4 years ago
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆215Updated last week
• epi2me-labs / wf-human-variation
  ☆109Updated 3 weeks ago
• hahnlab / CAFE5
  Version 5 of the CAFE phylogenetics software
  ☆121Updated 2 months ago
• xuzhougeng / Genomic_tools
  Genomic related tools
  ☆71Updated 3 years ago
• linzhi2013 / MitoZ
  MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes
  ☆119Updated 2 months ago
• HuiyangYu / PanDepth
  An ultra-fast and efficient genomic tool for coverage calculation
  ☆138Updated 4 months ago
• ncbi / egapx
  Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation
  ☆106Updated last week
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆200Updated 2 months ago
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆137Updated last year
• tangerzhang / ALLHiC
  ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data
  ☆175Updated 2 months ago
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆292Updated last month
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆155Updated last year
• OpenGene / fastplong
  Ultra-fast preprocessing and quality control for long-read sequencing data
  ☆93Updated 3 weeks ago
• 4ureliek / Parsing-RepeatMasker-Outputs
  Few scripts facilitating the extraction of info from Repeat Masker .out files
  ☆78Updated 3 years ago
• bergmanlab / mcclintock
  Meta-pipeline to identify transposable element insertions using next generation sequencing data
  ☆95Updated last year
• chenlianfu / geta
  ☆73Updated 6 months ago
• lh3 / pangene
  Constructing a pangenome gene graph
  ☆178Updated 6 months ago
• informationsea / transanno
  accurate LiftOver tool for new genome assemblies
  ☆118Updated 5 months ago
• biocorecrg / master_of_pores
  Nextflow pipeline for analysis of direct RNA Nanopore reads
  ☆98Updated last month
• tbenavi1 / genomescope2.0
  Reference-free profiling of polyploid genomes
  ☆111Updated 6 months ago
• marbl / SALSA
  SALSA: A tool to scaffold long read assemblies with Hi-C data
  ☆182Updated 8 months ago