Alternatives and similar repositories for EDTA:

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

• jenniferlu717 / KrakenTools
  KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files
  ☆329Updated last year
• broadinstitute / pilon
  Pilon is an automated genome assembly improvement and variant detection tool
  ☆354Updated 2 years ago
• BioInfoTools / BBMap
  (Not Offical) BBMap short read aligner, and other bioinformatic tools.
  ☆221Updated 4 years ago
• wyp1125 / MCScanX
  MCScanX: Multiple Collinearity Scan toolkit X version. The most popular synteny analysis tool in the world!
  ☆251Updated 3 months ago
• Nextomics / NextDenovo
  Fast and accurate de novo assembler for long reads
  ☆382Updated 10 months ago
• malonge / RagTag
  Tools for fast and flexible genome assembly scaffolding and improvement
  ☆495Updated last year
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆219Updated 2 months ago
• tpoorten / dotPlotly
  Generate an interactive dot plot from mummer or minimap alignments
  ☆197Updated last year
• aidenlab / 3d-dna
  3D de novo assembly (3D DNA) pipeline
  ☆207Updated last year
• TransDecoder / TransDecoder
  TransDecoder source
  ☆285Updated 5 months ago
• rrwick / Trycycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆316Updated 9 months ago
• Dfam-consortium / RepeatMasker
  RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
  ☆246Updated last week
• marbl / verkko
  Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and O…
  ☆322Updated this week
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆267Updated last month
• rrwick / Porechop
  adapter trimmer for Oxford Nanopore reads
  ☆353Updated 10 months ago
• edgardomortiz / vcf2phylip
  Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
  ☆305Updated last year
• schneebergerlab / syri
  Synteny and Rearrangement Identifier
  ☆367Updated 3 weeks ago
• tangerzhang / ALLHiC
  ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data
  ☆174Updated 5 months ago
• Ecogenomics / CheckM
  Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes
  ☆362Updated 6 months ago
• jtlovell / GENESPACE
  ☆199Updated last month
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆300Updated last month
• hewm2008 / NGenomeSyn
  Any Way to Show Multi genomic Synteny
  ☆177Updated 5 months ago
• NBISweden / GAAS
  Genome Assembly and Annotation Service code
  ☆209Updated last year
• rrwick / Filtlong
  quality filtering tool for long reads
  ☆323Updated last year
• Gaius-Augustus / BRAKER
  BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eu…
  ☆390Updated last month
• wdecoster / nanopack
  An overview of all nanopack tools
  ☆236Updated last year
• pangenome / pggb
  the pangenome graph builder
  ☆419Updated last month
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆207Updated 3 weeks ago
• ndierckx / NOVOPlasty
  NOVOPlasty - The organelle assembler and heteroplasmy caller
  ☆184Updated last year
• Dfam-consortium / RepeatModeler
  De-Novo Repeat Discovery Tool
  ☆206Updated 2 months ago