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
vote
1
reply
638
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
0
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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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676
views
using annotation data of an organism(eg. Oryza sativa) from AnnotationHub for mgoSim
AnnotationHubSoftware GOSemSim annotation
2.3 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 2.3 years ago by 50k • written 2.3 years ago by ▴ 90
0
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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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997
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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
vote
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
vote
3
replies
1.2k
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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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822
views
Using GoSemSim with other Ontologies
GOSemSim
updated 4.8 years ago by ▴ 730 • written 4.8 years ago by • 0
3
votes
12
replies
2.5k
views
Trouble installing GOSemSim
GOSemSim S4Vectors
5.1 years ago sergi.picart ▴ 20
0
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1
reply
938
views
Gene similarity by GOSemSim
gosemsim mgenesim
5.3 years ago athirak1986 • 0
0
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0
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992
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
1.8k
views
Error: could not find function "godata"
gosemsim
5.8 years ago anton.kratz ▴ 60
0
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1
reply
1.1k
views
GO similarity by GOSemSim
gosemsim similarity
5.9 years ago ahatashkar • 0
8
votes
5
replies
2.4k
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 8.6 years ago by ▴ 10
1
vote
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
votes
5
replies
1.5k
views
Using mgeneSim with Ensembl ids
Ensembl GOsemsim GO semantic similarity
updated 7.7 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 8.8 years ago by ▴ 10 • written 9.1 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
vote
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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914
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 11.8 years ago by ★ 1.2k • written 11.8 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: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa by Michael Love 41k
Sorry, for questions about statistical analysis plan and interpretation of results, I recommend to work with a local statistician or someon…
Answer: Fold change calculation in Diffbind vs. DESEQ2? by Michael Love 41k
There was a recent DiffBind question on the support site that noticed the same thing, try searching recent DiffBind posts.
Answer: Timecourse RNASeq analysis by Michael Love 41k
There are many choices for time course, and we have an example in our workflow (rnaseqGene). Otherwise, I recommend to consult a local …
Answer: Padj "NA" with thousands of low count although the raw read counts are quite lar by Michael Love 41k
You can either turn off independent filtering in `results` or use `ihw` see the vignette.
Comment: Why p value inconsistent when using different number of pathway score? by Chris • 0
Thanks Gordon for a detail guide! You have a great memory of time. GSVA also do differential express at pathway level (https://bioconductor…
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Comment: Why p value inconsistent when using different number of pathway score?
Nominations for Bioconductor Awards 2024!
Answer: Improving the design matrices vignette in RNAseq123
Answer: Perform gene set enrichment analysis using fgsea on two conditions that don't ha
Answer: Perform gene set enrichment analysis using fgsea on two conditions that don't ha
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