Go Back   SEQanswers > Bioinformatics > Bioinformatics

Similar Threads
Thread Thread Starter Forum Replies Last Post
RDP classifier training issues greigite Bioinformatics 4 11-30-2016 10:49 AM
Questions: Reads scores for RDP Classifier files imported into MEGAN khoojj Bioinformatics 0 08-05-2014 06:10 AM
How can I format RDP database to be used in a BLAST search? miguelangel Bioinformatics 5 07-04-2014 01:17 PM
Problem while building RDP tools rahbz General 0 10-24-2013 10:17 PM
RDP database SDPA_Pet Bioinformatics 2 05-31-2013 01:53 PM

Thread Tools
Old 08-24-2014, 12:26 AM   #1
Location: Finland

Join Date: Jun 2014
Posts: 10
Default RDP II - taxonomy


I have RDP II The file has taxonomy written, for example, like:

SOURCE Agromyces ramosus
ORGANISM Agromyces ramosus
Root; Bacteria; "Actinobacteria"; Actinobacteria; Actinobacteridae;
Actinomycetales; Micrococcineae; Microbacteriaceae; Agromyces.

For this I manually obtained taxonomy nomenclature (root, domain, phylum, class, subclass, order, suborder, family, genus):

domain Bacteria
phylum "Actinobacteria"
class Actinobacteria
subclass Actinobacteridae
order Actinomycetales
suborder Micrococcineae
family Microbacteriaceae
genus Agromyces

However, I can also see entries like (root, domain, phylum, class, order, family, genus):

domain Bacteria
phylum Firmicutes
class Bacilli
order Lactobacillales
family Streptococcaceae
genus Streptococcus

How can I assign nomenclature for each bacteria in the RDP II gb file?

sampie is offline   Reply With Quote

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off

All times are GMT -8. The time now is 09:39 PM.

Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2021, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO