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org.mm.eg.db
•
reset
8
votes
4
replies
5.2k
views
how to extract "Gene type" from org.Mm.eg.db?
annotation
org.Mm.eg.db
10.3 years ago
Guido Hooiveld
★ 4.1k
7
votes
11
replies
5.8k
views
annotatePeak() in ChIPseeker - how long does it take to run?
annotatePeak
chipseeker
chipseq
org.Mm.eg.db
TxDb.Mmusculus.UCSC.mm9.knownGene
updated 9.5 years ago by
Martin Morgan
25k • written 9.7 years ago by
Elsa
• 0
1
vote
2
replies
1.4k
views
GO evidence code IMR
org.mm.eg.db
GO
8.7 years ago
Peter Langfelder
★ 3.0k
1
vote
2
replies
1.7k
views
SYMBOL is not the official MGI gene symbol?
org.mm.eg.db
annotationdbi
updated 6.6 years ago by
James W. MacDonald
68k • written 6.6 years ago by
brendan.innes
▴ 20
0
votes
2
replies
3.5k
views
Error in testForValidKeytype(x, keytype) : Invalid keytype: TAIR. Please use the keytypes method to see a listing of valid arguments.
org.Mm.eg.db
updated 3.9 years ago by
Guido Hooiveld
★ 4.1k • written 3.9 years ago by
1627166123
• 0
4
votes
2
replies
4.0k
views
select keys from org.Mm.eg.db
org.mm.eg.db
select
list
updated 9.5 years ago by
James W. MacDonald
68k • written 9.5 years ago by
Assa Yeroslaviz
★ 1.5k
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
10.0 years ago • updated 9.9 years ago
Patrick Schorderet
▴ 20
4
votes
3
replies
2.0k
views
Selecting Correct Set of Gene IDs from Mouse Gencode GFF3 for RNA Seq Analysis (Removing Genes without symbols)
deseq2
tximport
org.mm.eg.db
gencode
7.0 years ago
pvd2107
▴ 30
1
vote
5
replies
3.6k
views
Is org.Mm.eg.db updated to mus musculus version 99?
org.Mm.eg.db
AnnotationDbi
4.9 years ago
kavator
▴ 30
0
votes
4
replies
4.5k
views
Problem with install installation("org.Hs.eg.db") package
org.Mm.eg.db
org.Hs.eg.db
4.0 years ago
Eslam
• 0
0
votes
1
reply
2.6k
views
Download of package ‘org.Mm.eg.db’ failed
org.Mm.eg.db
4.0 years ago
kevin
• 0
3
votes
2
replies
2.3k
views
ERROR in EnrichKEGG(), 'species should be listed' in, download method do not change
KEGG
DESeq2
biomaRt
clusterProfiler
org.Mm.eg.db
updated 19 months ago by
Guido Hooiveld
★ 4.1k • written 19 months ago by
Milan
▴ 10
1
vote
4
replies
2.0k
views
Large differences in gene content for GO terms between org.Mm.eg.db and msigdbr
org.Mm.eg.db
GO
msigdbr
2.1 years ago
S
▴ 10
3
votes
9
replies
916
views
Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) returning drastically different numbers of transcripts
AnnotationDbi
EnsDb.Mmusculus.v79
biomaRt
org.Mm.eg.db
updated 7 weeks ago by
franknappi14
• 0 • written 11 weeks ago by
Nicholas
• 0
1
vote
2
replies
2.0k
views
Apparent Ensembl - Entrez gene mis-match in org.Mm.eg.db.
org.Mm.eg.db
AnnotationDbi
updated 3.7 years ago by
James W. MacDonald
68k • written 3.7 years ago by
abf
▴ 30
1
vote
8
replies
1.2k
views
Suggestion for FGSEA and GSEA creation for C57BL/6J Mice
gsea
mice
org.Mm.eg.db
updated 5 months ago by
James W. MacDonald
68k • written 5 months ago by
Gordon
• 0
1
vote
3
replies
1.8k
views
Genome side annotation for drosophila
genome annotation
drosophila melanogaster
org.Mm.eg.db
updated 10.0 years ago by
Marc Carlson
★ 7.2k • written 10.0 years ago by
Patrick Schorderet
▴ 20
0
votes
1
reply
2.6k
views
How to use org.Mm.eg.db as chip in topGO printGenes function
topgo
org.mm.eg.db
updated 9.6 years ago by
fletchkatie
• 0 • written 9.8 years ago by
komalr
• 0
3
votes
2
replies
2.0k
views
Annotating RNAseq with GO (gene ontology) returns #NA for (nearly) all Entrez ids.
org.mm.eg.db
annotation
rnaseqgene
updated 9.7 years ago by
James W. MacDonald
68k • written 9.7 years ago by
michael.willcockson
• 0
0
votes
4
replies
1.8k
views
missing gene_ids in org.Mm.egENSEMBL
org.mm.eg.db
annotation
updated 9.3 years ago by
James W. MacDonald
68k • written 9.3 years ago by
Gregulator
▴ 30
4
votes
8
replies
5.4k
views
Annotating DEseq output using AnnotationDbi mapIds and most results say NA
AnnotationDbi
mapIds
org.Mm.eg.db
ENSEMBLTRANS
updated 8.2 years ago by
James W. MacDonald
68k • written 8.2 years ago by
Mike
▴ 10
2
votes
1
reply
1.4k
views
TopGO - Incorrect mapping genes to GO terms
topgo
go
org.mm.eg.db
updated 7.1 years ago by
James W. MacDonald
68k • written 7.1 years ago by
lehallib
• 0
2
votes
3
replies
3.0k
views
org.Mm.eg.db gives wrong symbol for MT genes
org.mm.eg.db
11.6 years ago • updated 6.6 years ago
Gordon Smyth
52k
4
votes
5
replies
3.2k
views
Failed to load "org.Mm.eg.db" package
org.Mm.eg.db
4.0 years ago • updated 3.9 years ago
Nicol
• 0
0
votes
1
reply
1.2k
views
ENSEMBL records not complete in org.Mm.eg.db?
org.Mm.eg.db
updated 3.9 years ago by
Kevin Blighe
★ 4.0k • written 3.9 years ago by
Ming Wang
• 0
2
votes
2
replies
2.4k
views
Error: package or namespace load failed for ‘org.Mm.eg.db':
org.Mm.eg.db
3.9 years ago
Jack
• 0
1
vote
9
replies
2.2k
views
Most enriched pathway is not expressed when modifying universe parameter
DESeq2
clusterProfiler
Pathways
RNASeq
org.Mm.eg.db
updated 9 months ago by
James W. MacDonald
68k • written 9 months ago by
adrip
▴ 10
1
vote
2
replies
1.1k
views
select with org.Mm.eg.db does not give ENSEMBL ids
org.Mm.eg.db
2.2 years ago
raf4
▴ 30
0
votes
1
reply
2.0k
views
Converting gene symbols to entrez ID
AnnotationDbi
org.Mm.eg.db
updated 3.0 years ago by
James W. MacDonald
68k • written 3.0 years ago by
rl19
• 0
29 results • Page
1 of 1
Recent ...
Replies
Comment: Package developing and interoperation with Bioconductor
by
shepherl
4.1k
Using an example with SummarizedExperiment would satisfy the requirement; however the package should take the object directly and not just…
Comment: Error in H5Dclose(h5dataset) when trying to read in kallisto h5 files
by
Sofia
• 0
1. I have tried to update the packages and R but to no avail. I keep getting either this error or : `Error in H5Fclose(file$H5Identifier) …
Comment: Validity of SingleR with very small bulk RNAseq reference
by
Rohit
• 0
Hi @nhaus So, what did you end up doing in such a scenario? I am facing a similar challenge
Comment: CpGs with genomic positions greater than the chromosome size in EPICv2?
by
Joshua Llano
• 0
Thank you for your reply James. I was worried that it was my mistake.
Comment: Annotation package for Manduca sexta
by
GA
▴ 10
Thank you!
Votes
Answer: CpGs with genomic positions greater than the chromosome size in EPICv2?
Answer: Explannation for ROAST results
A: How DiffBind run PCA based on peak data?
Looking for equivalent EPIC chip v1 vs. v2 annotation variables
Properly constructing a hypergeometric test
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