Showing : OrgDB • reset
1
vote
8
replies
1.0k
views
Error for AnnotationForge makeOrgPackageFromNCBI function
OrgDb AnnotationForge
updated 4 months ago by 68k • written 10 months ago by • 0
2
votes
2
replies
968
views
OrgDb for maize
clusterProfiler OrgDb biomaRt Zea_mays
updated 10 months ago by 68k • written 10 months ago by • 0
2
votes
2
replies
993
views
Only positive enrichment score in GSEA
clusterProfiler annotation gseGO gsea OrgDb
written 11 months ago by ▴ 10
1
vote
3
replies
817
views
Pan-organism OrgDb database, Accession number translated to organism name in R
AccNo OrgDb convert Organismname RStudio
updated 15 months ago by 68k • written 16 months ago by • 0
2
votes
4
replies
1.0k
views
Need help generating BSgenome and orgdb
OrgDb BSgenome
16 months ago • updated 13 months ago mat149 ▴ 80
0
votes
0
replies
2.6k
views
Error: package or namespace load failed for 'AnnotationDbi' in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]):
OrgDb
2.2 years ago hswdl • 0
1
vote
7
replies
2.0k
views
Adding geneID to list of gene locus IDs
cluster OrgDb clusterProfiler
written 2.3 years ago by • 0
0
votes
4
replies
2.2k
views
Help with creation of an OrgDB package and conduction of a bioinformatical analysis of gene expression
OrgDb
2.2 years ago hendrikwenneker • 0
1
vote
9
replies
2.2k
views
Why is OrgDb linked to specific biocversion? / How to analyze old datasets?
BiocVersion OrgDb clusterProfiler
2.3 years ago MK • 0
0
votes
1
reply
928
views
Share Annotation Packages
OrgDb AnnotationDbi
updated 2.4 years ago by 4.1k • written 2.4 years ago by • 0
0
votes
1
reply
1.6k
views
Exporting org.*.*.db Gene Ontology annotations to excel sheet or txt
OrgDb RNASeq
updated 3.1 years ago by 68k • written 3.1 years ago by • 0
0
votes
7
replies
6.0k
views
how to create an OrgDb package?
orgDb annotationForge
updated 2.9 years ago by • 0 • written 3.4 years ago by ▴ 20
1
vote
2
replies
2.0k
views
Translating Solanum lycopersum gene IDs to ENTREZIDs for GO enrichment analysis using clusterProfiler
OrgDb Bioconductor AnnotationHub clusterProfiler
updated 3.8 years ago by ★ 4.1k • written 3.8 years ago by • 0
0
votes
0
replies
1.2k
views
Adding to Pseudomonas aeruginosa PAO1 to OrgDb
OrgDb
3.9 years ago Thomas.H.Hampton • 0
2
votes
3
replies
2.3k
views
Gene Ontology Analysis of DE Genes
clusterProfiler AnnotationDbi OrgDb goseq
updated 4.1 years ago by 68k • written 4.1 years ago by ▴ 30
0
votes
2
replies
1.7k
views
Can't select GO from AnnotationHub orgDB packages
GO.db AnnotationHub OrgDB
updated 4.6 years ago by 68k • written 4.6 years ago by ★ 2.0k
3
votes
6
replies
3.0k
views
How to manage AnnotationHub snapshots / most OrgDB are missing?
AnnotationHub OrgDb snapshotDate
updated 2.6 years ago by 4.1k • written 4.8 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 4.9 years ago by • 0 • written 5.4 years ago by • 0
7
votes
44
replies
6.8k
views
OrgDB download failed via AnnotationHub
annotationhub orgdb
updated 5.7 years ago by 4.1k • written 5.7 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 7.0 years ago by 52k • written 7.0 years ago by • 0
0
votes
1
reply
1.6k
views
News: OrgDbs in AnnotationHub
annotationhub orgdb News
7.3 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
1.9k
views
Why are important organisms missing from AnnotationHub. Example query(hub, "Zea")
orgdb annotationhub
7.6 years ago slbai01 • 0
0
votes
2
replies
2.3k
views
add annotation features to BSgenome or txdb package
bsgenome txdb annotation orgdb
7.6 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
7.7 years ago shepherl 4.1k
0
votes
4
replies
1.6k
views
Annotation Hub object no longer present
Orgdb
8.2 years ago anamabrantesc • 0
2
votes
12
replies
2.7k
views
ann_objs$MAPCOUNTS <- AnnotationDbi:::createMAPCOUNTS(dbconn, prefix) does not work well
annotation orgdb
9.1 years ago knishida ▴ 20
3
votes
13
replies
3.2k
views
Org.db: why a supposed unique key (ID) has multiple entries?
annotationhub organismdb orgdb unsupported organisms
updated 9.1 years ago by ★ 6.8k • written 9.1 years ago by ★ 4.1k
0
votes
5
replies
2.2k
views
Why are important organisms missing from AnnotationHub() $rdataclass == "OrgDb"?
annotationhub orgdb
updated 9.3 years ago by ★ 6.8k • written 9.3 years ago by ▴ 10
0
votes
0
replies
1.4k
views
Error in makeOrgPackageFromNCBI
GO OrgDb annotate GOstats GO OrgDb annotate GOstats
11.7 years ago Chris Whelan ▴ 60
0
votes
6
replies
1.7k
views
Creating an OrganismDbi package with a few transcript annotations
OrgDb OrganismDbi OrgDb OrganismDbi
updated 11.8 years ago by 25k • written 11.8 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 13.0 years ago by ★ 4.1k • written 13.0 years ago by ★ 7.2k
32 results • Page 1 of 1
Recent ...
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Comment: how many significant figures are there in DESeq2 output by ATpoint ★ 4.7k
If you want consistency then use a fixed software environment like Docker, wirh fixed code and thresholds that make sense. Rounding to near…
Comment: Compare TCGA-PAAD with GTEx gene expression by Jane • 0
why aren't there any answers?
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I encountered the same issue: too many DEGs after limma analysis. It is sad that until today we can still see the paper published where GTE…
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Thank you for your reply. It is good to know that cutoff of 0.05 means less than 0.05. My concerns are about consistency and reproducibili…
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No, normalization factors from edgeR rather than size factors from DESeq2 are not proportional, it's a different concept and implementation…
Votes
A: Unbalanced experiment with multiple samples from each patient.
Unbalanced experiment with multiple samples from each patient.
Answer: Vertical line at A=0, nothing else, on MA plot
Answer: GSVA Error Code "Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct
Answer: Group-specific condition effects with individuals nested: matrix is not full ra
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