Alternatives and similar repositories for BRAKER

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

• nextgenusfs / funannotate
  Eukaryotic Genome Annotation Pipeline
  ☆368Updated 5 months ago
• malonge / RagTag
  Tools for fast and flexible genome assembly scaffolding and improvement
  ☆543Updated last year
• rrwick / Porechop
  adapter trimmer for Oxford Nanopore reads
  ☆376Updated last year
• nanoporetech / medaka
  Sequence correction provided by ONT Research
  ☆487Updated 3 months ago
• rrwick / Filtlong
  quality filtering tool for long reads
  ☆380Updated 2 months ago
• broadinstitute / pilon
  Pilon is an automated genome assembly improvement and variant detection tool
  ☆372Updated 3 years ago
• schneebergerlab / syri
  Synteny and Rearrangement Identifier
  ☆428Updated 7 months ago
• oushujun / EDTA
  Extensive de-novo TE Annotator
  ☆417Updated last month
• wdecoster / NanoPlot
  Plotting scripts for long read sequencing data
  ☆514Updated 3 months ago
• agshumate / Liftoff
  An accurate GFF3/GTF lift over pipeline
  ☆514Updated 2 years ago
• Nextomics / NextDenovo
  Fast and accurate de novo assembler for long reads
  ☆397Updated last year
• Ecogenomics / CheckM
  Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes
  ☆397Updated 5 months ago
• mummer4 / mummer
  Mummer alignment tool
  ☆539Updated 10 months ago
• pangenome / pggb
  the pangenome graph builder
  ☆468Updated 4 months ago
• Gaius-Augustus / Augustus
  Genome annotation with AUGUSTUS
  ☆322Updated 3 months ago
• jenniferlu717 / KrakenTools
  KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files
  ☆358Updated 4 months ago
• BioInfoTools / BBMap
  (Not Offical) BBMap short read aligner, and other bioinformatic tools.
  ☆243Updated 4 years ago
• marbl / verkko
  Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and O…
  ☆374Updated this week
• TransDecoder / TransDecoder
  TransDecoder source
  ☆299Updated 2 months ago
• ncbi / pgap
  NCBI Prokaryotic Genome Annotation Pipeline
  ☆359Updated 3 weeks ago
• chhylp123 / hifiasm
  Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
  ☆707Updated 8 months ago
• bxlab / metaWRAP
  MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis
  ☆450Updated 2 years ago
• ablab / quast
  Genome assembly evaluation tool
  ☆483Updated last year
• wyp1125 / MCScanX
  MCScanX: Multiple Collinearity Scan toolkit X version. The most popular synteny analysis tool in the world!
  ☆270Updated 2 months ago
• tseemann / abricate
  Mass screening of contigs for antimicrobial and virulence genes
  ☆455Updated last year
• tseemann / snippy
  Rapid haploid variant calling and core genome alignment
  ☆554Updated last year
• arpcard / rgi
  Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on h…
  ☆393Updated last week
• rrwick / Unicycler
  hybrid assembly pipeline for bacterial genomes
  ☆628Updated last year
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆331Updated 8 months ago
• ComparativeGenomicsToolkit / cactus
  Official home of genome aligner based upon notion of Cactus graphs
  ☆630Updated this week