Showing : OrgDB • reset
1
vote
8
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1.1k
views
Error for AnnotationForge makeOrgPackageFromNCBI function
OrgDb AnnotationForge
updated 5 months ago by 68k • written 11 months ago by • 0
2
votes
2
replies
1.1k
views
OrgDb for maize
clusterProfiler OrgDb biomaRt Zea_mays
updated 11 months ago by 68k • written 11 months ago by • 0
2
votes
2
replies
1.1k
views
Only positive enrichment score in GSEA
clusterProfiler annotation gseGO gsea OrgDb
written 12 months ago by ▴ 10
1
vote
3
replies
862
views
Pan-organism OrgDb database, Accession number translated to organism name in R
AccNo OrgDb convert Organismname RStudio
updated 16 months ago by 68k • written 17 months ago by • 0
2
votes
4
replies
1.1k
views
Need help generating BSgenome and orgdb
OrgDb BSgenome
17 months ago • updated 14 months ago mat149 ▴ 80
0
votes
0
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2.7k
views
Error: package or namespace load failed for 'AnnotationDbi' in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]):
OrgDb
2.3 years ago hswdl • 0
1
vote
7
replies
2.1k
views
Adding geneID to list of gene locus IDs
cluster OrgDb clusterProfiler
written 2.4 years ago by • 0
1
vote
4
replies
2.7k
views
Help with creation of an OrgDB package and conduction of a bioinformatical analysis of gene expression
OrgDb
2.3 years ago hendrikwenneker ▴ 10
1
vote
9
replies
2.3k
views
Why is OrgDb linked to specific biocversion? / How to analyze old datasets?
BiocVersion OrgDb clusterProfiler
2.4 years ago MK • 0
0
votes
1
reply
940
views
Share Annotation Packages
OrgDb AnnotationDbi
updated 2.5 years ago by 4.1k • written 2.5 years ago by • 0
0
votes
1
reply
1.7k
views
Exporting org.*.*.db Gene Ontology annotations to excel sheet or txt
OrgDb RNASeq
updated 3.2 years ago by 68k • written 3.2 years ago by • 0
0
votes
7
replies
6.2k
views
how to create an OrgDb package?
orgDb annotationForge
updated 3.0 years ago by • 0 • written 3.5 years ago by ▴ 20
1
vote
2
replies
2.1k
views
Translating Solanum lycopersum gene IDs to ENTREZIDs for GO enrichment analysis using clusterProfiler
OrgDb Bioconductor AnnotationHub clusterProfiler
updated 3.9 years ago by ★ 4.1k • written 3.9 years ago by • 0
0
votes
0
replies
1.2k
views
Adding to Pseudomonas aeruginosa PAO1 to OrgDb
OrgDb
4.0 years ago Thomas.H.Hampton • 0
2
votes
3
replies
2.4k
views
Gene Ontology Analysis of DE Genes
clusterProfiler AnnotationDbi OrgDb goseq
updated 4.2 years ago by 68k • written 4.2 years ago by ▴ 30
0
votes
2
replies
1.7k
views
Can't select GO from AnnotationHub orgDB packages
GO.db AnnotationHub OrgDB
updated 4.7 years ago by 68k • written 4.7 years ago by ★ 2.0k
3
votes
6
replies
3.1k
views
How to manage AnnotationHub snapshots / most OrgDB are missing?
AnnotationHub OrgDb snapshotDate
updated 2.7 years ago by 4.1k • written 4.9 years ago by ★ 2.0k
0
votes
34
replies
10k
views
Error: installation of package org.Mm.eg.db had non-zero exit status
OrgDb
updated 5.0 years ago by • 0 • written 5.5 years ago by • 0
7
votes
44
replies
7.1k
views
OrgDB download failed via AnnotationHub
annotationhub orgdb
updated 5.7 years ago by 4.1k • written 5.8 years ago by ▴ 10
3
votes
6
replies
2.3k
views
How to create a customized OrgDb in order to perform kegga analysis?
limma kegga orgdb
updated 7.1 years ago by 52k • written 7.1 years ago by • 0
0
votes
1
reply
1.6k
views
News: OrgDbs in AnnotationHub
annotationhub orgdb News
7.4 years ago shepherl 4.1k
0
votes
0
replies
1.6k
views
News: OrgDb and TxDb packages have been added to AnnotationHub for Bioc 3.6
orgdb txdb bioconductor annotation annotationhub News
7.4 years ago shepherl 4.1k
0
votes
6
replies
2.0k
views
Why are important organisms missing from AnnotationHub. Example query(hub, "Zea")
orgdb annotationhub
7.7 years ago slbai01 • 0
0
votes
2
replies
2.4k
views
add annotation features to BSgenome or txdb package
bsgenome txdb annotation orgdb
7.7 years ago Didi ▴ 10
1
vote
0
replies
1.4k
views
News: complete set of OrgDb packages have been added to AnnotationHub
bioconductor annotationhub orgdb News
7.8 years ago shepherl 4.1k
0
votes
4
replies
1.7k
views
Annotation Hub object no longer present
Orgdb
8.3 years ago anamabrantesc • 0
2
votes
12
replies
2.7k
views
ann_objs$MAPCOUNTS <- AnnotationDbi:::createMAPCOUNTS(dbconn, prefix) does not work well
annotation orgdb
9.2 years ago knishida ▴ 20
3
votes
13
replies
3.3k
views
Org.db: why a supposed unique key (ID) has multiple entries?
annotationhub organismdb orgdb unsupported organisms
updated 9.2 years ago by ★ 6.8k • written 9.2 years ago by ★ 4.1k
0
votes
5
replies
2.2k
views
Why are important organisms missing from AnnotationHub() $rdataclass == "OrgDb"?
annotationhub orgdb
updated 9.4 years ago by ★ 6.8k • written 9.4 years ago by ▴ 10
0
votes
0
replies
1.4k
views
Error in makeOrgPackageFromNCBI
GO OrgDb annotate GOstats GO OrgDb annotate GOstats
11.8 years ago Chris Whelan ▴ 60
0
votes
6
replies
1.8k
views
Creating an OrganismDbi package with a few transcript annotations
OrgDb OrganismDbi OrgDb OrganismDbi
updated 11.9 years ago by 25k • written 11.9 years ago by ★ 11k
0
votes
1
reply
1.9k
views
problem creating own org.Ss.eg.db
Annotation GO Organism OrgDb Annotation GO Organism OrgDb
updated 13.1 years ago by ★ 4.1k • written 13.1 years ago by ★ 7.2k
32 results • Page 1 of 1
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Comment: DESeq2 - human data, weird results, troubleshooting by bd2000 ▴ 30
I didn't include all of my code the post would be too long. Here's a link to my GitHub if anyone would like to see the full code: [Full Rst…
Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin by James W. MacDonald 68k
The simple answer is that the within-group variability is much higher for the first gene as compared to the second. The Wald statistic is j…
Comment: DESeq: Gene is not flagged as differentially expressed despite count data showin by ATpoint ★ 4.8k
> since there doesn't seem to be as much count variability, No? Your CD45 samples range on normalized scale from 2 to 3255. That's 3 orde…
Comment: Ensembl site unresponsive via biomaRt by darylruiz6545 • 0
Thank you so much for sharing the link.
Comment: compute_fasta_digest does not match Salmon index hash by Alex • 0
I use the `fastaDigest` tool from [COMBINE-lab/fastaDigest](https://github.com/COMBINE-lab/FastaDigest/), which has the function `compute_f…
Votes
Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin
Two EPIC Methylation Array Analysis Questions
How to get DMR for Infinium methylation EPIC v2
A: GEOquery Fails to Download Series Matrix File
Comment: Gene IDs conversion between Ensembl and NCBI nomenclature for non-model species
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