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RDP_Classifier_TrainingData 2023-08-23
rdp-classifier 2023-08-23
README.txt 2023-08-23 1.6 kB
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RDP Classifier 2.14 (August 2023) Release Note:

The Bacteria and Archaea hierarchy model used by RDP Classifier has been updated to training set No. 19. The new version has over 600 new genera and 2500 new species added since last version No. 18 released in July 2020. The information that is used to update the RDP taxonomy to training set version No. 19, and RDP Classifier version 2.14 came from publicly available scientific articles and public sequence repository, mostly from International Journal of Systematic and Evolutionary Microbiology (IJSEM), the All-Species Living Tree Project (LTP) and GenBank. 

It is worth noting that most of the phyla have new names, according to article "
Oren A, Garrity GM. Valid publication of the names of forty-two phyla of prokaryotes. Int J Syst Evol Microbiol. 2021 Oct;71(10). doi: 10.1099/ijsem.0.005056. PMID: 34694987."

In addition to the files to train and run the RDP Classifier, new file formats are made available to accommodate the needs of users:

1. A new file trainset19_072023_speciesrank.fa has been added to the release in RDPClassifier_16S_trainsetNo19_rawtrainingdata.zip. This file is NOT needed to train the classifier. In addition to sequences, it contains genus, species, strain, type status and taxonomy rank, which are useful for closest species identification using third-party tools (e.g. BLAST).

2. Two new files in RDPClassifier_16S_trainsetNo19_QiimeFormat.zip to retrain the RDP Classifier included in Qiime2 package.

For suggestions and feedback, please contact: 
Qiong Wang wangqion@gmail.com or qiong.wang@iff.com
James Cole colej@msu.edu
Source: README.txt, updated 2023-08-23