Showing : gosim • reset
3
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3
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1.0k
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compute similarities of GOTerms with GOSim in non-human species
GOSim
updated 6.3 years ago by ▴ 760 • written 6.3 years ago by ▴ 10
1
vote
1
reply
923
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GoSemSim - function mgeneSim() is resulting in similarity matrix without 1s on diagonal
GOSim GOSemSim
updated 2.0 years ago by ▴ 760 • written 2.0 years ago by ▴ 10
0
votes
0
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1.4k
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Simple GO pie and GOSim install error
GO Organism biomaRt GOSim GO Organism biomaRt GOSim
13.5 years ago Olivier Lucas ▴ 40
0
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2
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1.5k
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Simple GO pie and GOSim install error
GO Organism biomaRt GOSim GO Organism biomaRt GOSim
updated 13.5 years ago by ▴ 40 • written 13.5 years ago by ★ 7.2k
0
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2
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2.3k
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GOSim yeast
GO Yeast GOSim GO Yeast GOSim
updated 7.9 years ago by • 0 • written 12.7 years ago by ★ 13k
0
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1
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1.4k
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Gene ID of yeast in GOSemSim and other GO related package may need update
Annotation GO Yeast biomaRt GOSemSim GOSim Annotation GO Yeast biomaRt GOSemSim GOSim
updated 15.4 years ago by ★ 7.2k • written 15.4 years ago by ▴ 20
0
votes
0
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1.1k
views
GOSim Problem
Yeast Organism GOSim Yeast Organism GOSim
12.4 years ago Pablo Andretta Jaskowiak ▴ 10
0
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1
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1.6k
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Normalization of specificity level (level of depth) of GO terms dataset
gosim gosemsim
updated 7.9 years ago by ▴ 760 • written 9.4 years ago by ▴ 10
0
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1
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920
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I want to convert the go enrichment result to a data frame (tidy data)with two column which one is the gene symbol and the other is go term. Any one…
GO.db GOfuncR GO GOSim goProfiles
updated 2.4 years ago by ▴ 780 • written 2.4 years ago by • 0
0
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0
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949
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Problem while working with GOSim package
GOSim GOSim
12.5 years ago ANIRBAN BHAR ▴ 60
0
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3
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1.4k
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Query Gene Ontology
GOSim GOSim
updated 13.8 years ago by ★ 13k • written 13.8 years ago by ▴ 10
11 results • Page 1 of 1
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Answer: Automatically install dependencies by ATpoint ★ 4.7k
The BiocManager, which is sort of an extended wrapper around `install.packages`, installs all R dependencies. If you see errors then this i…
Answer: To count or not to count multi-overlapping reads? by Gordon Smyth 52k
> How does it handle reads that map to a gene that is located in a region that also has another gene but on the alternate strand? Overlapp…
Comment: Weird p-values using DESeq2? by ATpoint ★ 4.7k
This does not look like normalized counts but raw counts. Consider using `counts(dds, normalized = TRUE)` or the output of `normTransform()…
Answer: Weird p-values using DESeq2? by Wolfgang Huber ★ 13k
Dear Ingrid, thank you for asking. Can you provide the input count matrix (you can "pseudonymize" the biological conditions and the gene n…
Comment: How to visualize these pathways using pathview by ingrid.h • 0
Yes I have seen it, thanks.
Votes
A: Fraction count for multi mapping reads; how to generate input file for Deseq2 fo
Comment: Weird p-values using DESeq2?
Comment: Overcoming confounding in batch effect correction
Answer: Store Matrix in DataFrame Cell
Answer: enrichGOgradient color change
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