Showing : gosemsim • reset
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GOSemSim - mgeneSim weird output
GOSemSim similarity
updated 9 months ago by ▴ 730 • written 9 months ago by • 0
1
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1
reply
622
views
GoSemSim - function mgeneSim() is resulting in similarity matrix without 1s on diagonal
GOSim GOSemSim
updated 14 months ago by ▴ 730 • written 14 months ago by ▴ 10
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2
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1.5k
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Can't install GO.db
GOexpress GO.db GOSemSim
17 months ago Chruut • 0
0
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0
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658
views
using annotation data of an organism(eg. Oryza sativa) from AnnotationHub for mgoSim
AnnotationHubSoftware GOSemSim annotation
2.2 years ago Amandeep • 0
0
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3
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1.7k
views
using the goana function from edgeR
RNASeq edgeR GO GOSemSim
updated 2.2 years ago by 50k • written 2.2 years ago by ▴ 90
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1
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1.1k
views
is there an R library to compute semantic similarity in SNOMED ontology?
goSemSim snomed semantic similarity
updated 3.6 years ago by 6.7k • written 3.6 years ago by • 0
0
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982
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GOSemSim: "godata" function can not run using self-made org.db.package.
GOSemSim makeOrgPackage godata
updated 3.8 years ago by 65k • written 3.8 years ago by • 0
0
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1
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1.7k
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GO vs GOALL in rrvgo and GOSemSim
rrvgo GOSemSim GO.db
3.9 years ago Jenny Drnevich ★ 2.0k
1
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1
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1.3k
views
How to get GOSemSim work on custom packages built with AnnotationForge
Guangchuang Yu GOSemSim AnnotationForge
updated 4.0 years ago by ★ 3.9k • written 4.0 years ago by • 0
1
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3
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1.1k
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Meaning of NA in geneSim result using GOSemSim
GOSemSim Dnet
4.8 years ago helenlong1 • 0
0
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1
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811
views
Using GoSemSim with other Ontologies
GOSemSim
updated 4.8 years ago by ▴ 730 • written 4.8 years ago by • 0
3
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12
replies
2.5k
views
Trouble installing GOSemSim
GOSemSim S4Vectors
5.1 years ago sergi.picart ▴ 20
0
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1
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921
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Gene similarity by GOSemSim
gosemsim mgenesim
5.3 years ago athirak1986 • 0
0
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0
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981
views
GOSemSim - slow for BP terms
gosemsim go enrichment go semantic similarity
5.4 years ago nooshin ▴ 300
0
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2
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1.2k
views
(GOSemSim package) secondary GO terms generating NA values
gosemsim
updated 5.4 years ago by ★ 1.2k • written 5.4 years ago by • 0
2
votes
2
replies
1.7k
views
Error: could not find function "godata"
gosemsim
5.8 years ago anton.kratz ▴ 60
0
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1
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1.1k
views
GO similarity by GOSemSim
gosemsim similarity
5.8 years ago ahatashkar • 0
8
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5
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2.3k
views
Error in .checkKeys(value, Lkeys(x), x@ifnotfound) : value for "GO:0000059" not found
GOSemSim gosemsim gene ontology
updated 6.2 years ago by • 0 • written 6.2 years ago by ▴ 60
0
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1
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1.4k
views
Normalization of specificity level (level of depth) of GO terms dataset
gosim gosemsim
updated 7.1 years ago by ▴ 730 • written 8.5 years ago by ▴ 10
1
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12
replies
3.3k
views
Using GOsemsim to calculate semantic similarity between orthologus genes of two species
GOsemsim Gene ontology semantic similarity across species
updated 7.4 years ago by ★ 1.2k • written 7.4 years ago by ▴ 10
0
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5
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1.5k
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Using mgeneSim with Ensembl ids
Ensembl GOsemsim GO semantic similarity
updated 7.6 years ago by ★ 1.2k • written 7.7 years ago by ▴ 10
0
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4
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1.4k
views
problem of GOSemSim R package operation geneSim()
gosemsim
8.0 years ago bnembarekmarwa • 0
1
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1
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1.2k
views
GOSemSim Package - mgeneSim() function / In is.na(go) : is.na() applied to non-(list or vector) of type 'NULL'
GOSemSim mgeneSim
updated 8.0 years ago by ★ 1.2k • written 8.0 years ago by • 0
0
votes
9
replies
2.9k
views
expired SQLiteConnection in GoSemSim package.
gene ontology GOSemsim
updated 8.7 years ago by ▴ 10 • written 9.0 years ago by • 0
0
votes
4
replies
1.9k
views
GOterm semantic similarity with non-reference organism
gosemsim go gene ontology
9.0 years ago cpcantalapiedra • 0
1
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2
replies
1.8k
views
GOSemSim problem for yeast proteins
GOSemSim yeast
updated 9.2 years ago by ★ 1.2k • written 9.2 years ago by ▴ 10
0
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0
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1.7k
views
DOSE: an R/Bioconductor package for Disease Ontology Semantic and Enrichment analysis
enrichment genesetenrichment dose gosemsim
9.4 years ago Guangchuang Yu ★ 1.2k
0
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1
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1.5k
views
GOSemSim function, clusterSim throws expired SQLiteConnection error
GO GOSemSim GO GOSemSim
updated 10.4 years ago by ★ 1.2k • written 10.4 years ago by ★ 13k
0
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0
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1.2k
views
GOSemSim mgeneSim GO.BP calculation time
GO GOSemSim GO GOSemSim
11.6 years ago Guangchuang Yu ★ 1.2k
0
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0
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906
views
GOSemSim mgeneSim GO.BP calculation time
GO GOSemSim GO GOSemSim
11.7 years ago Guest User ★ 13k
0
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1
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1.4k
views
(pack: GOSemSim) NA semantic similarities between gene clusters
GO SemSim GOSemSim GO SemSim GOSemSim
updated 11.7 years ago by ★ 1.2k • written 11.7 years ago by ★ 13k
0
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1
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1.1k
views
GOSemSim comparison between species
Yeast GOSemSim Yeast GOSemSim
updated 11.9 years ago by ★ 8.2k • written 11.9 years ago by ▴ 10
0
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1
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1.2k
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 14.6 years ago by ★ 7.2k • written 14.6 years ago by ▴ 20
33 results • Page 1 of 1
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Comment: FilterByExpr low counts with small sample size by Gordon Smyth 50k
As always, it helps to see code. Are you running `voom` or `voomLmFit`? Did you run `normLibSizes()` in edgeR prior to `voom`? Are you star…
Comment: Batch correction and repeated measures by Gordon Smyth 50k
In your code, it was clear that `expr.mat` was a matrix rather than a DGEList, so it has to be a count matrix. If you have a DGEList object…
Comment: Methylation Analysis experiment design using Limma by Gordon Smyth 50k
I don't analyse methylation arrays so cannot advise on specific limma settings for that type of data. Please follow the advice of the methy…
Comment: Light difference when using coef vs omit a group when compare 3 groups. by Chris • 0
Hi Gordon, thank you so much for further guidance! I discussed this issue with doctor know about Alzheimer and they don't expect significan…
Comment: Single-Cell Data Simulation from Bulk RNA-seq by wichaidi • 0
Hi - I am wondering what you decided to do. I am currently in a similar condition where I need to create a toy scRNAseq data from bulk.
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Answer: How many of my genes from my gene list are in each KEGG pathway?
Comment: Light difference when using coef vs omit a group when compare 3 groups.
DESeq2 variance transformation error and plot dispersion Estimate
A: DESeq2 variance transformation error and plot dispersion Estimate
ensembl to hgnc symbols creates duplicates
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