Showing : org.mm.eg.db • reset
7
votes
11
replies
4.8k
views
annotatePeak() in ChIPseeker - how long does it take to run?
annotatePeak chipseeker chipseq org.Mm.eg.db TxDb.Mmusculus.UCSC.mm9.knownGene
updated 8.5 years ago by 25k • written 8.7 years ago by • 0
8
votes
4
replies
4.7k
views
how to extract "Gene type" from org.Mm.eg.db?
annotation org.Mm.eg.db
9.4 years ago • updated 9.3 years ago Guido Hooiveld ★ 3.9k
1
vote
2
replies
11k
views
select() gene in db not working although key exists
annotationdbi org.mm.eg.db org.dm.eg.db select
9.0 years ago Patrick Schorderet ▴ 20
0
votes
2
replies
2.6k
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 3.0 years ago by ★ 3.9k • written 3.0 years ago by • 0
4
votes
2
replies
3.4k
views
select keys from org.Mm.eg.db
org.mm.eg.db select list
updated 8.6 years ago by 65k • written 8.6 years ago by ★ 1.5k
1
vote
2
replies
1.3k
views
SYMBOL is not the official MGI gene symbol?
org.mm.eg.db annotationdbi
updated 5.7 years ago by 65k • written 5.7 years ago by ▴ 20
1
vote
2
replies
1.1k
views
GO evidence code IMR
org.mm.eg.db GO
7.7 years ago Peter Langfelder ★ 3.0k
4
votes
3
replies
1.6k
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
6.1 years ago • updated 6.0 years ago pvd2107 ▴ 30
1
vote
5
replies
2.4k
views
Is org.Mm.eg.db updated to mus musculus version 99?
org.Mm.eg.db AnnotationDbi
4.0 years ago kavator ▴ 30
0
votes
4
replies
3.7k
views
Problem with install installation("org.Hs.eg.db") package
org.Mm.eg.db org.Hs.eg.db
3.1 years ago Eslam • 0
0
votes
1
reply
1.6k
views
Download of package ‘org.Mm.eg.db’ failed
org.Mm.eg.db
3.1 years ago kevin • 0
3
votes
2
replies
1.0k
views
ERROR in EnrichKEGG(), 'species should be listed' in, download method do not change
KEGG DESeq2 biomaRt clusterProfiler org.Mm.eg.db
updated 8 months ago by ★ 3.9k • written 8 months ago by ▴ 10
1
vote
4
replies
1.2k
views
Large differences in gene content for GO terms between org.Mm.eg.db and msigdbr
org.Mm.eg.db GO msigdbr
14 months ago • updated 13 months ago S ▴ 10
1
vote
2
replies
1.4k
views
Apparent Ensembl - Entrez gene mis-match in org.Mm.eg.db.
org.Mm.eg.db AnnotationDbi
updated 2.7 years ago by 65k • written 2.7 years ago by ▴ 30
1
vote
2
replies
613
views
select with org.Mm.eg.db does not give ENSEMBL ids
org.Mm.eg.db
15 months ago raf4 ▴ 20
1
vote
3
replies
1.4k
views
Genome side annotation for drosophila
genome annotation drosophila melanogaster org.Mm.eg.db
updated 9.0 years ago by ★ 7.2k • written 9.0 years ago by ▴ 20
0
votes
1
reply
2.4k
views
How to use org.Mm.eg.db as chip in topGO printGenes function
topgo org.mm.eg.db
updated 8.7 years ago by • 0 • written 8.9 years ago by • 0
3
votes
2
replies
1.8k
views
Annotating RNAseq with GO (gene ontology) returns #NA for (nearly) all Entrez ids.
org.mm.eg.db annotation rnaseqgene
updated 8.8 years ago by 65k • written 8.8 years ago by • 0
0
votes
4
replies
1.5k
views
missing gene_ids in org.Mm.egENSEMBL
org.mm.eg.db annotation
updated 8.4 years ago by 65k • written 8.4 years ago by ▴ 30
4
votes
8
replies
4.4k
views
Annotating DEseq output using AnnotationDbi mapIds and most results say NA
AnnotationDbi mapIds org.Mm.eg.db ENSEMBLTRANS
updated 7.3 years ago by 65k • written 7.3 years ago by ▴ 10
2
votes
1
reply
1.2k
views
TopGO - Incorrect mapping genes to GO terms
topgo go org.mm.eg.db
updated 6.2 years ago by 65k • written 6.2 years ago by • 0
2
votes
3
replies
2.5k
views
org.Mm.eg.db gives wrong symbol for MT genes
org.mm.eg.db
10.7 years ago • updated 5.7 years ago Gordon Smyth 50k
4
votes
5
replies
2.2k
views
Failed to load "org.Mm.eg.db" package
org.Mm.eg.db
3.0 years ago Nicol • 0
0
votes
1
reply
840
views
ENSEMBL records not complete in org.Mm.eg.db?
org.Mm.eg.db
updated 2.9 years ago by ★ 3.9k • written 2.9 years ago by • 0
2
votes
2
replies
1.7k
views
Error: package or namespace load failed for ‘org.Mm.eg.db':
org.Mm.eg.db
3.0 years ago Jack • 0
0
votes
1
reply
1.4k
views
Converting gene symbols to entrez ID
AnnotationDbi org.Mm.eg.db
updated 2.0 years ago by 65k • written 2.0 years ago by • 0
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Comment: Differential peaks that were not identified in diffbind were identified in diseq by ATpoint ★ 4.0k
As expected normalization is **way** off, meaning in simple terms that the cloud is too high. The deep-blue area should be along y=0. Try t…
Comment: Differential peaks that were not identified in diffbind were identified in diseq by lonn • 0
Thank you for your suggestions! Here is the MA plot: ![enter image description here][1] I tried several normalization methods with DiffBi…
Answer: OrgDb for maize by Guido Hooiveld ★ 3.9k
I notice the data you are working with is based on `ensembl` ids. This is important, because the `OrgDb` are annotation databases that are …
Comment: Theoretical WGCNA Question by Garrett • 0
Thanks Peter!
Comment: FGSEA pre-ranked input in increasing order or decreasing by sropri • 0
Thank you!
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Answer: OrgDb for maize
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