User: Wox
Wox • 340
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Posts by Wox
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... Thank you very much :) ...
written 12 weeks ago by
Wox • 340
5
votes
1
answer
144
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5 follow
1
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... In Gene ontology and KEGG analysis, Why there are two cutoff values; p-value and (-) log10(FDR) value?
What is the role of these two cut-offs?
Could bioinformatician give an explanation to a wet lab person?
...
written 12 weeks ago by
Wox • 340
• updated
12 weeks ago by
jared.andrews07 ♦ 7.1k
3
votes
0
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151
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5 follow
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... What are the possible ways that I could compare two Gene interaction Networks?
WT upregulated genes interaction network vs `Mutants upregulated genes interaction network` ...
written 4 months ago by
Wox • 340
0
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... Thank you very much, Prof. Hope you are keeping well. Stay safe and Blessed in this current situation :) ...
written 5 months ago by
Wox • 340
3
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1
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448
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1
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... What is the meaning of **(-) log10(FDR)** value
How to interpret higher negative value to lower negative value by comparing each other?
e.g. 1:
Ribosome : *(-) log10(FDR) = 25*
Golgi : *(-) log10(FDR) = 5*
e.g. 2:
[![enter image description here][1]][1]
[1]: https://i.stack.imgur.com/zCAMa. ...
written 5 months ago by
Wox • 340
• updated
5 months ago by
Istvan Albert ♦♦ 84k
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282
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... Not for the top-level, Just after normalizing & Imputation steps! ...
written 6 months ago by
Wox • 340
0
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282
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... Thank you, Just want to learn how to export data to csv files and working with dplyr. ...
written 6 months ago by
Wox • 340
2
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282
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... Could you help me to find Intuitive Introductory resources to `bioconductor expressionset` and `summarizedexperiment` and learn how to work with SE data (At the end wanna handle edgeR, DEP, limma, and DESEQ2 packages by myself)
Any gentle introduction? It seems difficult to get familiar with these ...
written 7 months ago by
Wox • 340
8
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3
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316
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9 follow
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... Is there any **FREE interactive online tool** for `Gene Ontology enrichment analysis of biological processes` for summarizing `up- and down-regulated` **Arabidopsis thaliana genes**?
For example, figures look like below;
If not, how can I do this in "R"? Could someone provide **Stepwise guida ...
written 8 months ago by
Wox • 340
• updated
8 months ago by
grant.hovhannisyan • 2.0k
7
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1.1k
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7 follow
1
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... `**Package ‘![VennDiagram][1]’.**` How can I get the list of common objects in each combination?
For e.g. what are the common 44 Genes in interset (similar image got from online)?
I have used below scripts
Overlap <- calculate.overlap(x = list(BB, BB, BRR))
Overlap[[1]]
But in thi ...
written 8 months ago by
Wox • 340
• updated
8 months ago by
manuel.belmadani • 1.2k
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