Showing : GOSim • reset
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GoSemSim - function mgeneSim() is resulting in similarity matrix without 1s on diagonal
GOSim GOSemSim
updated 2.1 years ago by ▴ 760 • written 2.1 years ago by ▴ 10
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1
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932
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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
3
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3
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1.1k
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compute similarities of GOTerms with GOSim in non-human species
GOSim
updated 6.4 years ago by ▴ 760 • written 6.4 years ago by ▴ 10
0
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1
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1.7k
views
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
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2
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2.3k
views
GOSim yeast
GO Yeast GOSim GO Yeast GOSim
updated 8.0 years ago by • 0 • written 12.8 years ago by ★ 13k
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1.1k
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GOSim Problem
Yeast Organism GOSim Yeast Organism GOSim
12.4 years ago Pablo Andretta Jaskowiak ▴ 10
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956
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Problem while working with GOSim package
GOSim GOSim
12.5 years ago ANIRBAN BHAR ▴ 60
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
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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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3
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1.4k
views
Query Gene Ontology
GOSim GOSim
updated 13.8 years ago by ★ 13k • written 13.8 years ago by ▴ 10
0
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1
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1.4k
views
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 15.5 years ago by ★ 7.2k • written 15.5 years ago by ▴ 20
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Comment: how many significant figures are there in DESeq2 output by ATpoint ★ 4.7k
If you want consistency then use a fixed software environment like Docker, wirh fixed code and thresholds that make sense. Rounding to near…
Comment: Compare TCGA-PAAD with GTEx gene expression by Jane • 0
why aren't there any answers?
Comment: Too many significant genes when integrating gtex and tcga by Jane • 0
I encountered the same issue: too many DEGs after limma analysis. It is sad that until today we can still see the paper published where GTE…
Comment: how many significant figures are there in DESeq2 output by Matthew McCormack ▴ 180
Thank you for your reply. It is good to know that cutoff of 0.05 means less than 0.05. My concerns are about consistency and reproducibili…
Comment: DiffBind edgeR normalization --- why are the normalization factors all equal to by ATpoint ★ 4.7k
No, normalization factors from edgeR rather than size factors from DESeq2 are not proportional, it's a different concept and implementation…
Votes
A: Unbalanced experiment with multiple samples from each patient.
Unbalanced experiment with multiple samples from each patient.
Answer: Vertical line at A=0, nothing else, on MA plot
Answer: GSVA Error Code "Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct
Answer: Group-specific condition effects with individuals nested: matrix is not full ra
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