Alternatives and similar repositories for GENESPACE:

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

• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆303Updated 3 weeks ago
• tpoorten / dotPlotly
  Generate an interactive dot plot from mummer or minimap alignments
  ☆200Updated last year
• wdecoster / chopper
  ☆185Updated last week
• nanoporetech / modkit
  A bioinformatics tool for working with modified bases
  ☆185Updated 2 weeks ago
• hewm2008 / NGenomeSyn
  Any Way to Show Multi genomic Synteny
  ☆185Updated last week
• TobyBaril / EarlGrey
  Earl Grey: A fully automated TE curation and annotation pipeline
  ☆168Updated last week
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆222Updated 3 months ago
• marcelauliano / MitoHiFi
  Find, circularise and annotate mitogenome from PacBio assemblies
  ☆181Updated 2 months ago
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆137Updated 3 years ago
• Dfam-consortium / RepeatMasker
  RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
  ☆251Updated last week
• c-zhou / yahs
  Yet another Hi-C scaffolding tool
  ☆146Updated 6 months ago
• aineniamh / snipit
  snipit: summarise snps relative to your reference sequence
  ☆158Updated 3 months ago
• ncbi / egapx
  Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation
  ☆133Updated last month
• OpenGene / fastplong
  Ultra-fast preprocessing and quality control for long-read sequencing data
  ☆127Updated 2 weeks ago
• hillerlab / TOGA
  TOGA (Tool to infer Orthologs from Genome Alignments): implements a novel paradigm to infer orthologous genes. TOGA integrates gene annot…
  ☆180Updated last week
• hahnlab / CAFE5
  Version 5 of the CAFE phylogenetics software
  ☆131Updated 2 months ago
• marbl / SALSA
  SALSA: A tool to scaffold long read assemblies with Hi-C data
  ☆185Updated 11 months ago
• rrwick / Long-read-assembler-comparison
  Benchmarking of long-read assembly tools for bacterial whole genomes
  ☆170Updated 4 years ago
• HKU-BAL / Clair3
  Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
  ☆276Updated 3 weeks ago
• linzhi2013 / MitoZ
  MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes
  ☆122Updated 5 months ago
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆161Updated last year
• malonge / RaGOO
  RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag
  ☆173Updated 3 years ago
• tangerzhang / ALLHiC
  ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data
  ☆176Updated 6 months ago
• xiaochuanle / NECAT
  Nanopore data assembler
  ☆151Updated 3 years ago
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆212Updated 3 weeks ago
• aidenlab / 3d-dna
  3D de novo assembly (3D DNA) pipeline
  ☆209Updated last year
• rrwick / Trycycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆320Updated 11 months ago
• DRL / blobtools
  Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets
  ☆201Updated 8 months ago
• huangnengCSU / compleasm
  A genome completeness evaluation tool based on miniprot
  ☆209Updated last week
• rrwick / Deepbinner
  a signal-level demultiplexer for Oxford Nanopore reads
  ☆126Updated 4 years ago