How to proceed after Trinotate?
1
0
Entering edit mode
4.8 years ago
Ismaelrymy • 0

Hi there.

I'm new to the field of transcriptomics, and, as such, finding information sometimes can be quite difficult. I have to assemble a reference transcriptome de novo, and i have made it through trimming, filtering, assembly, and almost annotation. I used Trinotate to annotate my first draft of the transcriptome, but now, I don't know how to proceed.

I have a .csv file, with all the blast results (and other annotations), but I don't know how to filter this information (one blast result has several transcripts, some of them complete, some fragmentary) and I would like to know how would you proceed in this step of the analysis.

If you have some kind of input or resources to check online I would be very grateful.

Trinotate Annotation Transcritptome • 1.3k views
ADD COMMENT
0
Entering edit mode
4.8 years ago
Gio12 ▴ 220

You may consider predicting GO terms for your transcripts or evaluating the completeness of your transcriptome using BUSCO (https://busco.ezlab.org/). Additional details of your experiment (e.g. species of interest) may aid in getting better advice on this subject.

ADD COMMENT

Login before adding your answer.

Traffic: 1220 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6