Showing : annotationdbi • reset
19
votes
6
replies
41k
views
How to map all Ensembl IDs to Gene Symbols- Problem with AnootationDbi
rnaseq annotationdbi
updated 8.3 years ago by ★ 6.8k • written 8.3 years ago by ▴ 70
0
votes
3
replies
12k
views
trouble using select() to get all GO terms when have duplicate query IDs
AnnotationDbi
updated 9.2 years ago by 67k • written 9.2 years ago by ★ 2.0k
1
vote
2
replies
12k
views
select() gene in db not working although key exists
annotationdbi org.mm.eg.db org.dm.eg.db select
9.8 years ago • updated 9.7 years ago Patrick Schorderet ▴ 20
0
votes
7
replies
9.8k
views
AnnotationDbi Errors: unable to find an inherited method for function 'select' for signature 'character'.
AnnotationDbi
updated 4.4 years ago by 67k • written 4.4 years ago by • 0
13
votes
12
replies
8.3k
views
From a ENST to ENSG
AnnotationDbi
4.0 years ago suxxa ▴ 20
6
votes
1
reply
7.2k
views
Finding orthologous human/mouse ENSEMBL IDs
human mouse ensembl annotationdbi homologue
7.6 years ago Keith Hughitt ▴ 180
7
votes
11
replies
6.7k
views
Error in sqliteSendQuery(conn, statement): error in statement: no such table: c.probes
edgeR limma annotationhub kegga annotationdbi
updated 8.5 years ago by ▴ 20 • written 8.8 years ago by ▴ 20
5
votes
22
replies
6.0k
views
sqliteSendQuery error in AnnotationForge bioconductor package
bioconductor annotationforge annotationdbi annotation r
updated 8.5 years ago by ★ 1.0k • written 9.9 years ago by • 0
3
votes
3
replies
5.9k
views
failing to install the package org.Hs.eg.db in R (version 3.5.2 )
org.Hs.eg.db AnnotationDbi
updated 23 months ago by • 0 • written 5.9 years ago by • 0
0
votes
14
replies
5.5k
views
Easy way to turn OrgDb object from AnnotationHub into package?
AnnotationHub AnnotationDbi AnnotationForge pathview
7.9 years ago • updated 2.4 years ago Jenny Drnevich ★ 2.0k
4
votes
8
replies
5.1k
views
Annotating DEseq output using AnnotationDbi mapIds and most results say NA
AnnotationDbi mapIds org.Mm.eg.db ENSEMBLTRANS
updated 8.0 years ago by 67k • written 8.0 years ago by ▴ 10
0
votes
3
replies
4.6k
views
ERROR: dependency 'AnnotationDbi' is not available for package 'GO.db'
bioconductor R go.db annotationdbi dependency
7.9 years ago Sidi.Ma • 0
0
votes
1
reply
4.5k
views
ERROR: lazy loading failed for package ‘org.Hs.eg.db’
org.hs.eg.db annotationdbi error
updated 9.7 years ago by ★ 8.2k • written 9.7 years ago by • 0
2
votes
1
reply
4.4k
views
Find correct annotation for specific agilent platforms Whole Human Genome Microarray 4x44K
agilent whole Human Genome Microarray 4X44K annotationdbi bioconductor
9.3 years ago Konstantinos Yeles ▴ 80
8
votes
12
replies
4.4k
views
How to create tx2gene data.frame when there's no TxDb object for the organism you are working with.
tximport deseq2 annotationdbi
updated 7.3 years ago by ★ 2.1k • written 7.3 years ago by • 0
5
votes
3
replies
4.3k
views
Is it possible to annotated mitochondrial genes with ENSEMBL ids and Homo.sapiens/Mus.musculus?
homo.sapiens annotationdbi
updated 7.2 years ago by ★ 2.1k • written 7.2 years ago by ▴ 40
1
vote
2
replies
4.2k
views
Error attaching org.Hs.eg.db package
annotationdbi annotation organismdb loadnamespace
10.2 years ago milorobertsmith • 0
2
votes
2
replies
3.8k
views
problem using AnnotationDbi
annotationdbi bioconductor
6.9 years ago h72ghorashi • 0
3
votes
6
replies
3.6k
views
Problem with annotating ENSEMBLE IDs to GENE SYMBOL with AnnotationDBI mapIDs
annotation ensembl annotationdbi
6.6 years ago vd4mmind • 0
0
votes
3
replies
3.4k
views
Annotation DB for ArrayStar lncRNA arrays
arraystar lncRNA annotation annotationdbi
updated 9.4 years ago by • 0 • written 9.8 years ago by ▴ 430
3
votes
2
replies
3.4k
views
Mapping Ensemble IDs with version numbers using ensembl annotation packages
AnnotationDbi ensembldb
3.9 years ago Ezgi ▴ 60
3
votes
5
replies
3.3k
views
Map TxDb.Hsapiens.UCSC.hg19.knownGene TXID keys to ENSEMBL transcript ID or Refseq ID
annotationdbi
updated 8.1 years ago by 67k • written 8.1 years ago by ▴ 10
1
vote
2
replies
3.3k
views
mapping mouse ENSEMBL ids to human gene symbol
Annotation AnnotationDbi annotate
updated 3.5 years ago by 67k • written 3.5 years ago by • 0
1
vote
5
replies
3.3k
views
Is org.Mm.eg.db updated to mus musculus version 99?
org.Mm.eg.db AnnotationDbi
4.7 years ago kavator ▴ 30
5
votes
7
replies
3.2k
views
Duplicated ENTREZID gene annotations org.Hs.eg.db
ENTREZID SYMBOL AnnotationDbi org.Hs.eg.db
updated 4.0 years ago by 52k • written 4.0 years ago by • 0
3
votes
18
replies
3.2k
views
Annotating codelink data file
r codelink annotation annotationdbi
updated 9.7 years ago by ▴ 760 • written 9.7 years ago by ▴ 260
5
votes
3
replies
3.2k
views
Get the latest gene name from Entrez ID
AnnotationDbi org.Hs.eg.db
3.8 years ago sgupt46 ▴ 10
0
votes
4
replies
3.2k
views
topGO annotations issue
topgo annotationdbi
9.9 years ago willmacnair • 0
2
votes
3
replies
3.1k
views
GSEA only returning 1 GO term - unable to map Ensembl IDs with decimals?
AnnotationDbi GO clusterProfiler enrichplot ensembldb
updated 2.3 years ago by ▴ 140 • written 2.3 years ago by ▴ 10
5
votes
6
replies
3.1k
views
Is mapId supposed to concatenate multiVals?
annotationdbi ensembldb
updated 7.6 years ago by ★ 2.1k • written 7.7 years ago by ★ 13k
5
votes
3
replies
3.1k
views
Gene conversion from SYMBOL to ENTREZ using AnnotationDbi doesn't convert some of the genes
AnnotationDbi org.Hs.eg.db
4.1 years ago Emilia ▴ 40
2
votes
3
replies
3.0k
views
org.Mm.eg.db mm9 version for ChIPpeakAnno getEnrichedGO function
chippeakanno annotationdbi
updated 7.2 years ago by • 0 • written 9.2 years ago by • 0
9
votes
2
replies
2.9k
views
How to deal with Affymetrix GeneChip probeids that map to multiple genes
hta20sttranscriptcluster.db probe mapping annotation pd.hta.2.0 annotationdbi
updated 8.3 years ago by 67k • written 8.3 years ago by ▴ 20
6
votes
6
replies
2.9k
views
Weird output of biomaRt R package querying Ensembl IDs (hg19/grch37) to retrieve gene symbols
biomaRt annnotation RNASeq AnnotationDbi
3.7 years ago svlachavas ▴ 840
1
vote
4
replies
2.8k
views
biocLite updating problem with Ubuntu 17.10
ubuntu biocgenerics s4vectors IRanges annotationdbi
updated 7.1 years ago by 25k • written 7.1 years ago by • 0
2
votes
5
replies
2.7k
views
Get corresponding gene id for probe id from Affymetrix array
AnnotationDbi Microarray
2.7 years ago nhaus ▴ 70
1
vote
9
replies
2.7k
views
AnnotationDbi: Select - Join order
AnnotationDbi
5.9 years ago faustfrankenstein • 0
3
votes
1
reply
2.7k
views
Converting between UCSC id and gene symbol with bioconductor annotation resources
AnnotationData AnnotationDbi annotation
updated 3.3 years ago by 67k • written 3.3 years ago by • 0
6
votes
4
replies
2.7k
views
Annotation with org.Hs.eg.db Genome Build 38
AnnotationDbi org.Hs.eg.db
4.1 years ago Bine ▴ 50
0
votes
2
replies
2.6k
views
Weirdness with the human org.Hs.eg.db annotation database
annotationdbi homo sapiens
updated 10.2 years ago by ★ 7.2k • written 10.2 years ago by ▴ 220
0
votes
1
reply
2.6k
views
GO term as "keytype" in GO.db
GO AnnotationDbi GO AnnotationDbi
updated 11.7 years ago by 6.7k • written 11.7 years ago by ★ 3.4k
1
vote
3
replies
2.6k
views
Annotate gene counts
annotation RNASeq annotationdbi
updated 7.5 years ago by 43k • written 7.5 years ago by • 0
3
votes
2
replies
2.5k
views
how to use select() to retrieve GO Biological Process Ancestors?
GO.db AnnotationDbi
updated 4.0 years ago by 25k • written 4.0 years ago by ★ 4.1k
2
votes
4
replies
2.5k
views
Problems during the installation of AnnotationDbi and pasilla
AnnotationDbi
updated 10.2 years ago by ▴ 200 • written 10.2 years ago by • 0
2
votes
17
replies
2.5k
views
Problem installing package, version of dependency issue
AnnotationDbi GO.db
updated 12 months ago by ▴ 760 • written 12 months ago by ▴ 50
0
votes
6
replies
2.5k
views
Missing as.list generic from AnnotationDbi?
annotate AnnotationDbi annotate AnnotationDbi
updated 10.3 years ago by ★ 2.0k • written 11.6 years ago by ★ 7.9k
0
votes
4
replies
2.5k
views
Installing beadarray
annotate geneplotter beadarray AnnotationDbi annotate geneplotter beadarray AnnotationDbi
updated 17.2 years ago by 21k • written 17.2 years ago by ▴ 270
1
vote
6
replies
2.5k
views
what's the difference between this two AnnotationDbi::select type in GO select
GO.db AnnotationDbi
updated 3.4 years ago by • 0 • written 3.4 years ago by ▴ 40
0
votes
0
replies
2.5k
views
GO term as "keytype" in GO.db
GO AnnotationDbi GO AnnotationDbi
11.7 years ago Robert Castelo ★ 3.4k
2
votes
3
replies
2.4k
views
Convert Refseq Protein IDs to UniProt IDs
AnnotationDbi
4.1 years ago sgupt46 ▴ 10
50 results • Page 1 of 1
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Answer: promoters_txdb <- promoters(txdb, upstream = 2000) is not 2000 by James W. MacDonald 67k
If you use `promoters` and do not provide an argument for something that has a default, you will get the default argument. Your last call t…
Comment: org.Hs.eg.db issue by k.panov • 0
installed R on another PC, works perfectly. ergo, problem outside of R probably..... :-(
Comment: MBDseq analysis using qsea package by Lukas ▴ 20
Hi, I checked in with Matthias and here is his response: You need to indicate "samples": "The indices of the samples for which individu…
Comment: DESeq2 analysis with transcript counts by sindhuri • 0
Thank you for the response. Currently I am using the R studio for analysis and Im running DESeq2 for analysis of the **transcript counts.ts…
Comment: iam not able to do retrive data using GEOquery R package by James W. MacDonald 67k
Another alternative is to use the `GEOmetadb` package ([vignette here)][1], which will allow you to make queries to identify GEO datasets t…
Votes
A: Linear regression in DESeq2
Answer: Is there any chance to solve "the model matrix is not full rank" in DESeq2?
Answer: Issue carrying out DiffBind Analysis at a predefined peak set
Answer: Differential variability modelling with vst() expression
Answer: Differential variability modelling with vst() expression
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