Questions tagged [go]
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7
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eggNOG: DNA-DNA or protein-protein orthologue identification?
I'm trying to work out is how reliable/accurate my eggNOG metagenomic outputs are. Critical for this is how its identifying orthologues.
Background eggNOG is ...
M__♦
- 11.2k
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Number of edges in Graphical Analysis using Jupyter with Go Programming language
I'm trying to learn graphical analysis in a biological setting.
The online course suggested using the Go Programming language, so I'm new to it and help to understand why the number of edges that I ...
- 1
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Choosing Fisher's Exact or Binomial test for overrepresentation in PANTHER
The PANTHER website offers a tool to obtain the GO-based overrepresentation of a gene list (the analyzed list) versus a reference gene list. After entering both these lists, the tool asks to choose ...
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After KEGG and GO analysis, how to make tables+phylogenetic trees
hope everyone is ok. I used Trinity to do a de novo transcriptome assembly, then blastp/blastx and then used Blast2GO software to do KEGG and GO analysis. So i got some txt files with header :
for GO
...
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4
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GOseq analysis with evidence code filter
When using GOseq analysis on RNA-seq data, I often find many 'false positives'. What I mean with that is that some genes in certain categories are not really involved in the process, but are only ...
- 3,571
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Correct for gene length or read counts in GO enrichment analysis
It is a well reported fact that GO analysis of RNAseq results is affected by a number of biases, including length bias and expression level bias.
The bioconductor ...
- 3,271
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How to run enrichment analysis of protein functional annotation?
I have a lot of protein clusters. I want to perform an enrichment analysis of their functional annotations, against reference datasets or list of genes I select.
More precisely: a method yields ...
- 161