Showing : GOSemSim • reset
0
votes
9
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3.6k
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expired SQLiteConnection in GoSemSim package.
gene ontology GOSemsim
updated 10.4 years ago by ▴ 10 • written 10.7 years ago by • 0
8
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5
replies
3.1k
views
Error in .checkKeys(value, Lkeys(x), x@ifnotfound) : value for "GO:0000059" not found
GOSemSim gosemsim gene ontology
updated 7.9 years ago by • 0 • written 7.9 years ago by ▴ 60
0
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4
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2.0k
views
problem of GOSemSim R package operation geneSim()
gosemsim
9.6 years ago bnembarekmarwa • 0
0
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1
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1.5k
views
GOSemSim: "godata" function can not run using self-made org.db.package.
GOSemSim makeOrgPackage godata
updated 5.4 years ago by 68k • written 5.4 years ago by • 0
0
votes
1
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1.5k
views
is there an R library to compute semantic similarity in SNOMED ontology?
goSemSim snomed semantic similarity
updated 5.2 years ago by 6.7k • written 5.2 years ago by • 0
0
votes
2
replies
3.3k
views
Can't install GO.db
GOexpress GO.db GOSemSim
3.1 years ago Chruut • 0
0
votes
4
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2.5k
views
GOterm semantic similarity with non-reference organism
gosemsim go gene ontology
10.6 years ago cpcantalapiedra • 0
0
votes
3
replies
2.8k
views
using the goana function from edgeR
RNASeq edgeR GO GOSemSim
updated 3.9 years ago by 53k • written 3.9 years ago by ▴ 90
0
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1
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1.9k
views
Normalization of specificity level (level of depth) of GO terms dataset
gosim gosemsim
updated 8.7 years ago by ▴ 760 • written 10.2 years ago by ▴ 10
1
vote
1
reply
1.6k
views
GOSemSim Package - mgeneSim() function / In is.na(go) : is.na() applied to non-(list or vector) of type 'NULL'
GOSemSim mgeneSim
updated 9.7 years ago by ★ 1.2k • written 9.7 years ago by • 0
0
votes
1
reply
706
views
Help using reduceSimMatrix with a custom annotation
AnnotationHub GOSemSim rrvgo
updated 7 months ago by ▴ 80 • written 13 months ago by • 0
0
votes
5
replies
2.1k
views
Using mgeneSim with Ensembl ids
Ensembl GOsemsim GO semantic similarity
updated 9.3 years ago by ★ 1.2k • written 9.3 years ago by ▴ 10
1
vote
12
replies
4.5k
views
Using GOsemsim to calculate semantic similarity between orthologus genes of two species
GOsemsim Gene ontology semantic similarity across species
updated 9.0 years ago by ★ 1.2k • written 9.0 years ago by ▴ 10
0
votes
1
reply
1.4k
views
GOSemSim comparison between species
Yeast GOSemSim Yeast GOSemSim
updated 13.5 years ago by ★ 8.2k • written 13.5 years ago by ▴ 10
0
votes
1
reply
1.7k
views
(pack: GOSemSim) NA semantic similarities between gene clusters
GO SemSim GOSemSim GO SemSim GOSemSim
updated 13.4 years ago by ★ 1.2k • written 13.4 years ago by ★ 13k
0
votes
2
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1.7k
views
(GOSemSim package) secondary GO terms generating NA values
gosemsim
updated 7.0 years ago by ★ 1.2k • written 7.0 years ago by • 0
0
votes
1
reply
1.8k
views
GOSemSim function, clusterSim throws expired SQLiteConnection error
GO GOSemSim GO GOSemSim
updated 12.1 years ago by ★ 1.2k • written 12.1 years ago by ★ 13k
0
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1
reply
1.6k
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 16.3 years ago by ★ 7.2k • written 16.3 years ago by ▴ 20
0
votes
1
reply
1.2k
views
Using GoSemSim with other Ontologies
GOSemSim
updated 6.4 years ago by ▴ 760 • written 6.4 years ago by • 0
3
votes
12
replies
4.0k
views
Trouble installing GOSemSim
GOSemSim S4Vectors
6.7 years ago sergi.picart ▴ 20
1
vote
2
replies
2.3k
views
GOSemSim problem for yeast proteins
GOSemSim yeast
updated 10.9 years ago by ★ 1.2k • written 10.9 years ago by ▴ 10
1
vote
1
reply
2.2k
views
How to get GOSemSim work on custom packages built with AnnotationForge
Guangchuang Yu GOSemSim AnnotationForge
updated 5.7 years ago by ★ 4.0k • written 5.7 years ago by • 0
2
votes
2
replies
2.2k
views
Error: could not find function "godata"
gosemsim
7.5 years ago anton.kratz ▴ 60
0
votes
0
replies
1.5k
views
GOSemSim mgeneSim GO.BP calculation time
GO GOSemSim GO GOSemSim
13.3 years ago Guangchuang Yu ★ 1.2k
0
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0
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2.1k
views
DOSE: an R/Bioconductor package for Disease Ontology Semantic and Enrichment analysis
enrichment genesetenrichment dose gosemsim
11.1 years ago Guangchuang Yu ★ 1.2k
0
votes
1
reply
1.6k
views
GO similarity by GOSemSim
gosemsim similarity
7.5 years ago ahatashkar • 0
0
votes
0
replies
1.2k
views
GOSemSim mgeneSim GO.BP calculation time
GO GOSemSim GO GOSemSim
13.3 years ago Guest User ★ 13k
0
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0
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1.5k
views
GOSemSim - slow for BP terms
gosemsim go enrichment go semantic similarity
7.0 years ago nooshin ▴ 300
0
votes
1
reply
1.5k
views
Gene similarity by GOSemSim
gosemsim mgenesim
7.0 years ago athirak1986 • 0
1
vote
3
replies
1.7k
views
Meaning of NA in geneSim result using GOSemSim
GOSemSim Dnet
6.4 years ago helenlong1 • 0
0
votes
1
reply
2.8k
views
GO vs GOALL in rrvgo and GOSemSim
rrvgo GOSemSim GO.db
5.5 years ago Jenny Drnevich ★ 2.0k
0
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0
replies
1.2k
views
using annotation data of an organism(eg. Oryza sativa) from AnnotationHub for mgoSim
AnnotationHubSoftware GOSemSim annotation
3.9 years ago Amandeep • 0
1
vote
1
reply
1.2k
views
GoSemSim - function mgeneSim() is resulting in similarity matrix without 1s on diagonal
GOSim GOSemSim
updated 2.8 years ago by ▴ 760 • written 2.9 years ago by ▴ 10
0
votes
1
reply
873
views
GOSemSim - mgeneSim weird output
GOSemSim similarity
updated 2.4 years ago by ▴ 760 • written 2.4 years ago by • 0
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Answer: NUPOP usage by shepherl 4.2k
You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
Comment: How can I correctly use phyloseq with Docker? by fnfgame • 0
In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment by Michael Love 43k
The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…
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C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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