gtdb

There are 0 repository under gtdb topic.

• pirovc / ganon

  ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refseq/genbank), taxonomic profiling (ncbi/gtdb), binning and hierarchical classification, customized reporting and more

  metagenomicsbioinformaticsk-merbloom-filtermicrobiomeminimizerstaxonomygenbankgtdbncbirefseq
  Language:Python 81

• FOI-Bioinformatics / flextaxd

  FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomic databases (kraken2, ganon and more )

  ncbi-taxonomygtdbganonkraken2custom-taxonomymetagenomic-classificationcustom-databasetaxonomic-classificationtaxonomic-classificationscentrifugekrakenuniqncbi-databaseamplicon16s
  Language:Python 63

• shenwei356 / gtdb-taxdump

  GTDB taxonomy taxdump files with trackable TaxIds

  gtdbtaxdumptaxidtaxonkitbioinformaticstaxonomy
  Language:R 41

• pirovc / multitax

  Python package to obtain, parse and explore biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)

  taxonomyncbigtdbsilvagreengenesopen-tree-taxonomyottpythontreepyhton-librarybiological-taxonomiestaxonomiesbioinformatics
  Language:Python 35

• shenwei356 / ncbi_acc2gtdb_acc

  Mapping NCBI Genbank accession to GTDB accession

  gtdbaccessionncbi
  14

• HobnobMancer / cazy_webscraper

  Web scraper to retrieve protein data catalogued by the CAZy, UniProt, NCBI, GTDB and PDB websites/databases.

  cazycazymesscrapercazy-familycazy-webscraperprotein-sequencesgenbankprotein-structuresgtdbbioinformaticscarbohydratesdatabaseenzymesgenomicspython
  Language:Python 13

• roseedwin / Benchmarking-taxonomic-classifiers-for-soil-shotgun-data

  Benchmarking various taxonomic classifiers for profiling soil metagenomic data, with scripts and tools tailored for fungal, bacterial, and archaeal genome identification.

  benchmarkingbioinformatics-analysisbioinformatics-scriptsgtdbkaijukrakenmetaphlantaxonomic-classificationsoil-metagenomics
  Language:R 2

• leylabmpi / gtdb_to_taxdump

  databasesgtdbtaxonomy
  Language:Python