Question: Any web based tool to depict long list of GO terms
0
gravatar for Bioinformatician_in_trouble
4 months ago by

hi, How do i show a long list of GO term obtained from STRING analysis in my manuscript?I sure could include it in tabular form but was wondering if there are any other ways to show. I have tried REVIGO but the list is so big that REVIGO tree map doesn't come out clear. edit: I understand there is python package called CirGO but was looking for non coding options.

rna-seq next-gen • 213 views
ADD COMMENTlink modified 3 months ago • written 4 months ago by Bioinformatician_in_trouble10

Thank you both for your answers, i will probably go ahead with g:Profiler!

ADD REPLYlink written 3 months ago by Bioinformatician_in_trouble10
3
gravatar for Leite
3 months ago by
Leite950
São Paulo - Brazil - Unifesp
Leite950 wrote:

Dear @ Bioinformatician_in_trouble

An interesting way to show enriched pathways is through dotplot here are some examples (including code)

Question: DAVID gene ontology using dotplot

Question: Dotplot for filtered pathways result

Another way is with bar charts, like this:

enter image description here

Reference

But all these options are code based. One tip, if you are going to continue in bioinformatics, learn the basics of R and python.

Returning to the question, I think a non-code based output would be FunRich, g:Profiler and WEB-based GEne SeT AnaLysis Toolkit

ADD COMMENTlink modified 3 months ago • written 3 months ago by Leite950
1
gravatar for Amar
3 months ago by
Amar640
Amar640 wrote:

Try g:Profiler but all the good visualisations are going to need some coding.

ADD COMMENTlink written 3 months ago by Amar640
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1088 users visited in the last hour