Showing : annotationdbi • reset
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Mapping of probe IDs to gene gene symbols for Affymetrix Human Clariom D Assay platform
GeneMapping AnnotationDbi AffymetrixDataTestFiles GeneExpressionSignature org.Hs.eg.db
updated 5 months ago by 63k • written 5 months ago by • 0
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0
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237
views
AnnotationDbi Error: PROSITE is defunct.
ChipDb AnnotationDbi Annotation
5 months ago ahiser • 0
0
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1
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384
views
Create an Annotation DB file for a non-model organism
AnnotationDbi annotation ChIPseeker
updated 7 months ago by 63k • written 7 months ago by ▴ 50
2
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3
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599
views
org.Hs.eg.db gives more than one ENTREZID for a gene symbol
org.Hs.eg.db AnnotationDbi
updated 8 months ago by 63k • written 8 months ago by • 0
0
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3
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425
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How to handle multiple assay versions in a ChipDb annotation package
ChipDb AnnotationDbi AnnotationForge
updated 8 months ago by 63k • written 8 months ago by • 0
0
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1
reply
435
views
Share Annotation Packages
OrgDb AnnotationDbi
updated 11 months ago by 3.5k • written 11 months ago by • 0
2
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3
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1.4k
views
GSEA only returning 1 GO term - unable to map Ensembl IDs with decimals?
AnnotationDbi GO clusterProfiler enrichplot ensembldb
updated 12 months ago by ▴ 90 • written 12 months ago by ▴ 10
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1
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777
views
Error in .testForValidKeys(x, keys, keytype, fks) :
SingleCell AnnotationDbi
updated 12 months ago by 63k • written 12 months ago by • 0
0
votes
1
reply
564
views
Bioconducter can not be installed on latest RStudio
AnnotationDbi biomaRt Bioconductor
updated 15 months ago by ★ 6.1k • written 15 months ago by • 0
2
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3
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986
views
Get MANE transcripts from TxDb.Hsapiens.UCSC.hg38.knownGene
AnnotationDbi
updated 5 weeks ago by 63k • written 16 months ago by • 0
2
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5
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1.1k
views
Get corresponding gene id for probe id from Affymetrix array
AnnotationDbi Microarray
16 months ago nhaus • 0
0
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1
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1.1k
views
Converting gene symbols to entrez ID
AnnotationDbi org.Mm.eg.db
updated 17 months ago by 63k • written 17 months ago by • 0
0
votes
2
replies
1.0k
views
AnnotationDbi
AnnotationDbi
23 months ago Bogdan ▴ 660
3
votes
1
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1.7k
views
Converting between UCSC id and gene symbol with bioconductor annotation resources
AnnotationData AnnotationDbi annotation
updated 2.0 years ago by 63k • written 2.0 years ago by • 0
1
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6
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1.3k
views
what's the difference between this two AnnotationDbi::select type in GO select
GO.db AnnotationDbi
updated 2.1 years ago by • 0 • written 2.1 years ago by ▴ 40
0
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3
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766
views
Error using old ensembldb annotations with R 4.0 +
anno EnsDb.Hsapiens.v79 ensDb.HSapiens.v92 AnnotationDbi ensembldb
2.1 years ago rbenel ▴ 30
1
vote
2
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1.1k
views
Apparent Ensembl - Entrez gene mis-match in org.Mm.eg.db.
org.Mm.eg.db AnnotationDbi
updated 2.1 years ago by 63k • written 2.1 years ago by ▴ 30
1
vote
2
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841
views
What are these genes ? [How to get Ensembl IDs for them]
AnnotationDbi biomaRt
updated 2.1 years ago by ▴ 30 • written 2.1 years ago by • 0
3
votes
1
reply
855
views
[PrimeView] Affymetrix Human Gene Expression Array
AnnotationDbi [PrimeView]AffymetrixHumanGeneExpressionArray
updated 2.2 years ago by ★ 3.7k • written 2.2 years ago by • 0
1
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2
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1.9k
views
mapping mouse ENSEMBL ids to human gene symbol
Annotation AnnotationDbi annotate
updated 2.2 years ago by 63k • written 2.2 years ago by • 0
0
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1
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915
views
failing to install the package org.Hs.eg.db in R (version 4.0.5 )
AnnotationDbi org.Hs.eg
updated 2.3 years ago by 63k • written 2.3 years ago by • 0
1
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2
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1.1k
views
trouble with ENSEMBL ids for Org.Ss.eg.db
Annotation org.Ss.eg.db AnnotationDbi
2.3 years ago carine.genet • 0
6
votes
6
replies
1.7k
views
Weird output of biomaRt R package querying Ensembl IDs (hg19/grch37) to retrieve gene symbols
biomaRt annnotation RNASeq AnnotationDbi
2.3 years ago svlachavas ▴ 810
3
votes
3
replies
1.9k
views
Get the latest gene name from Entrez ID
AnnotationDbi org.Hs.eg.db
2.5 years ago sgupt46 • 0
0
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5
replies
840
views
annotaton hub will not load in R4.04 RStudio3.12
AnnotationDbi
written 2.5 years ago by • 0
1
vote
5
replies
960
views
install Annotation Packages BSgenome.Osativa.MSU.MSU7 failed
Oryza_sativa AnnotationDbi
updated 2.5 years ago by 16k • written 2.5 years ago by • 0
3
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2
replies
1.7k
views
Mapping Ensemble IDs with version numbers using ensembl annotation packages
AnnotationDbi ensembldb
2.6 years ago Ezgi ▴ 60
2
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3
replies
1.3k
views
Gene Ontology Analysis of DE Genes
clusterProfiler AnnotationDbi OrgDb goseq
updated 2.6 years ago by 63k • written 2.6 years ago by ▴ 20
13
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12
replies
4.9k
views
From a ENST to ENSG
AnnotationDbi
2.7 years ago • updated 2.6 years ago suxxa ▴ 20
3
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2
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1.4k
views
how to use select() to retrieve GO Biological Process Ancestors?
GO.db AnnotationDbi
updated 2.7 years ago by 25k • written 2.7 years ago by ★ 3.7k
4
votes
2
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1.1k
views
ensembldb for Homo Sapiens organism containing superfluous SYMBOL genes?
AnnotationDbi EnsDb.Hsapiens org.Hs.eg.db
updated 2.7 years ago by ★ 2.0k • written 2.7 years ago by • 0
5
votes
7
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1.9k
views
Duplicated ENTREZID gene annotations org.Hs.eg.db
ENTREZID SYMBOL AnnotationDbi org.Hs.eg.db
updated 2.7 years ago by 48k • written 2.7 years ago by • 0
4
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4
replies
1.4k
views
Annotation with org.Hs.eg.db Genome Build 38
AnnotationDbi org.Hs.eg.db
2.8 years ago Bine ▴ 20
2
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3
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1.6k
views
Convert Refseq Protein IDs to UniProt IDs
AnnotationDbi
2.8 years ago sgupt46 • 0
4
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3
replies
1.6k
views
Gene conversion from SYMBOL to ENTREZ using AnnotationDbi doesn't convert some of the genes
AnnotationDbi org.Hs.eg.db
2.8 years ago Emilia ▴ 30
0
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7
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7.2k
views
AnnotationDbi Errors: unable to find an inherited method for function 'select' for signature 'character'.
AnnotationDbi
updated 3.1 years ago by 63k • written 3.1 years ago by • 0
0
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4
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1.1k
views
Wrong annotation (TSS/TTS) for many genes: keytype="GENEID" with mapIds(TxDb.Mmusculus.UCSC.mm10.knownGene)
AnnotationDbi annotation TxDb.Mmusculus.UCSC.mm10.knownGene
updated 3.3 years ago by 63k • written 3.3 years ago by • 0
4
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5
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1.5k
views
makeOrgPackage - ERROR: Two fields in the source DB have the same name
software error AnnotationForge AnnotationDbi
updated 3.4 years ago by 63k • written 3.4 years ago by • 0
1
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5
replies
1.9k
views
Is org.Mm.eg.db updated to mus musculus version 99?
org.Mm.eg.db AnnotationDbi
3.4 years ago kavator ▴ 30
0
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1
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622
views
After "DBI" and "AnnotationDbi" are installed, the AnnotationDbi dependency package is still not available when "org.hs.eg.db" is installed
org.hs.eg.db AnnotationDbi
updated 3.5 years ago by 25k • written 3.5 years ago by • 0
0
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4
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765
views
<N/A> Gene Ontology while using the AnnotationDbi package
go annotation annotationdbi
3.5 years ago CUCIO199 • 0
5
votes
11
replies
1.2k
views
Inconsistent data within org.Sc.sgd.db package
org.Sc.sgd.db AnnotationDbi
updated 19 months ago by • 0 • written 3.6 years ago by • 0
0
votes
2
replies
598
views
makeOrgPackage Error in .deriveTableNameFromField(field = keytype, x) : Two fields in the source DB have the same name
software error go AnnotationForge AnnotationDbi
updated 3.7 years ago by 63k • written 3.7 years ago by • 0
0
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3
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895
views
None of the genes or compounds mapped to the pathway!
pathview AnnotationDbi
updated 4.0 years ago by 40k • written 4.0 years ago by • 0
2
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3
replies
1.5k
views
tximport::summarizeToGene fails to ignoreTxVersion
tximport tximeta AnnotationDbi
4.2 years ago Benjamin • 0
1
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1
reply
830
views
The total genes items (e.g. ENTREZ ID, SYMBOL) in OrgDb (Salmo salar; [["AH66207"]]) is just half the gene number in NCBI ?!
Annotationhub Annotationdb profiler annotationdbi
4.4 years ago wecai • 0
4
votes
5
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1.2k
views
Getting CDSCHROM values from ENSEMBL/SYMBOL keys using mapIds from TxDb.Hsapiens.UCSC.hg19.knownGene
ensembl cdschrom org.Hs.eg.db AnnotationDbi SingleCellExperiment
updated 4.5 years ago by 63k • written 4.5 years ago by ▴ 10
0
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5
replies
1.2k
views
hyperGTest not working on custom annotation package
GOstats AnnotationDbi GO.db
updated 4.5 years ago by 63k • written 4.6 years ago by • 0
3
votes
3
replies
4.3k
views
failing to install the package org.Hs.eg.db in R (version 3.5.2 )
org.Hs.eg.db AnnotationDbi
updated 7 months ago by • 0 • written 4.6 years ago by • 0
1
vote
9
replies
1.7k
views
AnnotationDbi: Select - Join order
AnnotationDbi
4.6 years ago faustfrankenstein • 0
50 results • Page 1 of 1
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Comment: DMRcate design by James W. MacDonald 63k
That's what identical context means.
Comment: DMRcate design by Jitendra ▴ 10
Thanks James, but I did not understand it clearly. Could I used same Limma design matrix for DMRcate?
Comment: Steps needed to change design (relevel factors) in DESeq2 by jd774 • 0
Thanks for the example code, would the `"condition_1_vs_2"` and `"condition_2_vs_1"` giving same or different results on DEGs and normalize…
Answer: heatmap.2 - change column & row locations; angle / rotate by nehagoyal6397 • 0
Window 10 are comes with the new updates [how to fix connections to wireless displays in windows 10](http://fixwindows10connections.com) ju…
Comment: filtering out lowly expressed genes by groups by James W. MacDonald 63k
You might want to filter first though. ``` fun <- function(deseqobj, contvec, cutoff) { lildds <- dds[rowMeans(assays(deseqobj…
Votes
Bioconductor 3.18 db0s, OrgDbs, and TxDbs now available
Comment: Timely differentially expressed genes
Comment: NPARC package y-variable
Comment: List of Deprecated Packages for Bioc3.18
Answer: Manual creation of qPCRset does not work
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