User: Lluís R.

gravatar for Lluís R.
Lluís R.810
Reputation:
810
Status:
Trusted
Location:
Spain, Barcelona
Website:
http://b101nfo.blogspo...
Twitter:
Lluis_Rev
Scholar ID:
Google Scholar Page
Last seen:
3 hours ago
Joined:
5 years, 1 month ago
Email:
l************@gmail.com

I am interested nowadays in microarrays, RNA-Seq and genome annotation, GO and pathways. But my goal are to maximize the useful information of each existing experiment. Now I am committing with Bioconductor, you can follow some of my thought in my blog, or in twitter.

Posts by Lluís R.

<prev • 164 results • page 1 of 17 • next >
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Comment: C: GO network analysis
... The GO network is fixed, so I understand you want some other type of network. What kind of network do you want? What type of information do you have? ...
written 3 months ago by Lluís R.810
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Comment: C: How to combine all three Ontology classes (BP, MF and CC) in a single analysis ?
... The structure of the GO data, makes such a combination difficult: it is designed to have separate structure. However, I would recommend to run the over-representative analysis and then see which genes map to which GO found over-represented in your analysis. That way you could further filter your gen ...
written 3 months ago by Lluís R.810
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Comment: C: How to combine all three Ontology classes (BP, MF and CC) in a single analysis ?
... I think it is not possible, as the topology method is based precisely on the differences on the structure of each sub ontology. But why do you want to do this? ...
written 3 months ago by Lluís R.810
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Comment: C: Posting a preprint paper on biostars.com
... I think it is as good venue to share your research as other. Perhaps here there are more expert than other forums, so it might be worth it. ...
written 4 months ago by Lluís R.810
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Comment: C: pathview R package not working
... I think the answers is on the warnings you get: ``` Warning: None of the genes or compounds mapped to the pathway! Argument gene.idtype or cpd.idtype may be wrong. ``` ...
written 4 months ago by Lluís R.810
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Comment: C: Difference between GO.db, biomaRt, and org.Hs.eg.db in GO annotations
... Totally true, but that was not the question I was answering, it asked specifically for three packages. And this is duly noted in the KEGG.db package and in the info of the dataitself. This is due to a change in the KEGG license. One can access to the whole KEGG database using the API though. ...
written 5 months ago by Lluís R.810
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Comment: C: Why are people not working on gene prioritization and candidate gene selection f
... Wasn't this paper https://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.2006643 ...
written 5 months ago by Lluís R.810
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Comment: C: what next after DEGs?
... That depends on your "biological" question and your data. What question do you want to answer? ...
written 5 months ago by Lluís R.810
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Comment: C: Difference between GO.db, biomaRt, and org.Hs.eg.db in GO annotations
... Yes, it is the basic information of the updates of Bioconductor packages. You can find it explained in [Annotation Packages][1]: > Annotation packages contain lightly or non-curated data from a public source and are updated with each Bioconductor release (every 6 months). I'll add it in the or ...
written 6 months ago by Lluís R.810
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Comment: C: WGCNA export Network To Cytoscape without trait data, error "Cannot determine no
... Then you need to correct the modgenes variable to the names you want (`nodeNames = rownames(modTOM)[top]`). ...
written 6 months ago by Lluís R.810

Latest awards to Lluís R.

Good Answer 10 weeks ago, created an answer that was upvoted at least 5 times. For A: Difference between GO.db, biomaRt, and org.Hs.eg.db in GO annotations
Appreciated 11 weeks ago, created a post with more than 5 votes. For A: Difference between GO.db, biomaRt, and org.Hs.eg.db in GO annotations
Scholar 6 months ago, created an answer that has been accepted. For A: Accepted Workflows for Strongly Ontology/Pathway-Driven Analyses of RNA-seq Data
Popular Question 6 months ago, created a question with more than 1,000 views. For Google Summer Of Code 2014 Gsoc 2014
Popular Question 13 months ago, created a question with more than 1,000 views. For Which Is An Acceptable Pipeline From Sequencing To Deep Annotation?
Popular Question 13 months ago, created a question with more than 1,000 views. For Google Summer Of Code 2014 Gsoc 2014
Teacher 15 months ago, created an answer with at least 3 up-votes. For A: StackExchange/Area51 bioinformatics is back
Scholar 15 months ago, created an answer that has been accepted. For A: Accepted Workflows for Strongly Ontology/Pathway-Driven Analyses of RNA-seq Data
Scholar 18 months ago, created an answer that has been accepted. For A: Accepted Workflows for Strongly Ontology/Pathway-Driven Analyses of RNA-seq Data
Commentator 22 months ago, created a comment with at least 3 up-votes. For C: StackExchange/Area51 bioinformatics is back
Teacher 23 months ago, created an answer with at least 3 up-votes. For A: StackExchange/Area51 bioinformatics is back
Centurion 23 months ago, created 100 posts.
Voter 2.7 years ago, voted more than 100 times.
Popular Question 3.3 years ago, created a question with more than 1,000 views. For Which Is An Acceptable Pipeline From Sequencing To Deep Annotation?
Popular Question 3.5 years ago, created a question with more than 1,000 views. For Which Is An Acceptable Pipeline From Sequencing To Deep Annotation?
Supporter 4.9 years ago, voted at least 25 times.
Autobiographer 4.9 years ago, has more than 80 characters in the information field of the user's profile.

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