Showing : AnnotationForge • reset
3
votes
7
replies
518
views
makeChipPackage(): Error in data.frame(..., check.names = FALSE) : arguments imply differing number of rows:
AnnotationForge
updated 20 days ago by 68k • written 4 weeks ago by • 0
5
votes
13
replies
2.3k
views
Installing annotation package in locally
AnnotationDbi AnnotationHub Annotation AnnotationForge
10 months ago KABILAN • 0
2
votes
2
replies
474
views
SAS token for Annotation package
AnnotationDbi AnnotationForge
11 months ago KABILAN • 0
0
votes
3
replies
1.4k
views
makeOrgPackageFromGAF() error with gene ID "GID"
AnnotationHub AnnotationDbi AnnotationForge
13 months ago Anna • 0
4
votes
14
replies
2.4k
views
Error: no such table: main.gene2pubmed when running makeOrgPackageFromNCBI() from AnnotationForge
OrganismDb AnnotationForge
15 months ago • updated 14 months ago Ozan • 0
1
vote
2
replies
874
views
Erroe when using makeOrgPackageFromNCBI()
AnnotationForge
15 months ago Patadù ▴ 20
1
vote
8
replies
1.3k
views
Error for AnnotationForge makeOrgPackageFromNCBI function
OrgDb AnnotationForge
updated 10 months ago by 68k • written 16 months ago by • 0
2
votes
28
replies
6.7k
views
Problem making orgdb package for bacteria (Pseudomonas) using annotation hub and annotation forge
AnnotationHub AnnotationForge Pseudomonas_aeruginosa
updated 21 months ago by 68k • written 2.7 years ago by ▴ 10
2
votes
4
replies
1.3k
views
Question about creating custom organism database with AnnotationForge
AnnotationForge
22 months ago Adrian • 0
2
votes
5
replies
1.6k
views
Help with orgdb for non-model species via makeOrgPackageFromNCBI
AnnotationForge makeOrgPackageFromNCBI
updated 22 months ago by 68k • written 22 months ago by ▴ 80
4
votes
6
replies
1.9k
views
Query regarding to create custom organism database with AnnotationForge package (AnnotationForge::makeOrgPackageFromNCBI)
AnnotationForge OrganismData OrganismDb
2.2 years ago abhisek001 • 0
0
votes
1
reply
2.5k
views
Error in .testForValidKeys(x, keys, keytype, fks)
clusterProfiler AnnotationForge
updated 2.4 years ago by 4.2k • written 2.4 years ago by • 0
1
vote
15
replies
3.6k
views
AnnotationForge::makeOrgPackageFromNCBI - ERROR to access url (NCBI FTP site)
AnnotationForge
2.6 years ago • updated 2.5 years ago Mistinrain ▴ 10
0
votes
1
reply
859
views
AnnotationForge::makeOrgPackageFromNCBI - ERROR to access url (NCBI FTP site)
AnnotationForge
updated 2.6 years ago by • 0 • written 2.6 years ago by ▴ 10
1
vote
1
reply
980
views
AnnotationForge::makeOrgPackage "argument is missing, with no default" Errors
AnnotationForge
2.6 years ago Mistinrain ▴ 10
0
votes
3
replies
1.3k
views
How to handle multiple assay versions in a ChipDb annotation package
ChipDb AnnotationDbi AnnotationForge
updated 2.6 years ago by 68k • written 2.6 years ago by • 0
0
votes
2
replies
5.1k
views
Error in h(simpleError(msg, call)) : when calling makeOrgPackagefromNCBI()
biomaRt AnnotationForge
3.3 years ago Lan Anh • 0
3
votes
8
replies
4.1k
views
AnnotationForge::makeOrgPackage GO Ids mistake
AnnotationHubData AnnotationForge
3.4 years ago Saber_J ▴ 10
4
votes
2
replies
6.3k
views
Install package without updating dependent package
Install AnnotationForge
3.7 years ago 亮 • 0
0
votes
7
replies
6.5k
views
how to create an OrgDb package?
orgDb annotationForge
updated 3.4 years ago by • 0 • written 3.9 years ago by ▴ 20
1
vote
5
replies
2.3k
views
Gene ID conversion for pathway enrichment analysis of differentially expressed genes
GeneIDConversion AnnotationForge
updated 4.4 years ago by ★ 4.1k • written 4.4 years ago by • 0
0
votes
3
replies
1.8k
views
AnnotationForge: makeOrgPackageFromNCBI Error in function (type, msg, asError = TRUE) : FTP response timeout
AnnotationForge
updated 4.5 years ago by ★ 4.0k • written 4.5 years ago by • 0
2
votes
4
replies
1.5k
views
MakeOrgPackageFromNCBI SQL error
MakeOrgPackageFromNCBI NCBI SQL AnnotationForge
updated 5.3 years ago by 68k • written 5.3 years ago by • 0
4
votes
5
replies
2.6k
views
makeOrgPackage - ERROR: Two fields in the source DB have the same name
software error AnnotationForge AnnotationDbi
updated 5.3 years ago by 68k • written 5.3 years ago by • 0
3
votes
3
replies
1.2k
views
AnnotationForge run by three days and do not end
annotation AnnotationForge
5.3 years ago Marcelo Laia ▴ 450
1
vote
1
reply
2.2k
views
How to get GOSemSim work on custom packages built with AnnotationForge
Guangchuang Yu GOSemSim AnnotationForge
updated 5.4 years ago by ★ 4.0k • written 5.4 years ago by • 0
0
votes
4
replies
1.6k
views
AnnotationForge not working for building custom org packages
AnnotationForge Marc Carlson Hervé Pagès
updated 5.4 years ago by 68k • written 5.4 years ago by • 0
5
votes
7
replies
2.7k
views
Problem with installing packages made by makeOrgPackageFromNCBI
AnnotationForge makeOrgPackageFromNCBI gene ontology edgeR pathwayanalysis
updated 2.4 years ago by ▴ 50 • written 5.5 years ago by ▴ 20
0
votes
2
replies
1.9k
views
error with downloading NCBI data for makeorgpackagefromNCBI?
annotationforge makeOrgPackageFromNCBI
updated 5.5 years ago by 68k • written 5.5 years ago by • 0
0
votes
2
replies
1.2k
views
makeOrgPackage Error in .deriveTableNameFromField(field = keytype, x) : Two fields in the source DB have the same name
software error go AnnotationForge AnnotationDbi
updated 5.6 years ago by 68k • written 5.6 years ago by • 0
0
votes
0
replies
1.5k
views
topGO::annFUN.org() problem due to case-sensitivity of OrgDb field names
topGO AnnotationForge
6.5 years ago psutton • 0
0
votes
7
replies
2.6k
views
go_bp table in custom OrgDb package
annotation go pcaExplorer AnnotationForge
updated 6.5 years ago by 68k • written 6.5 years ago by • 0
1
vote
7
replies
2.0k
views
Error:object 'lookup_tax_id_by_organism' not found with makeOrgPackageFromNCBI
annotationforge
updated 7.0 years ago by 68k • written 7.0 years ago by • 0
1
vote
3
replies
1.6k
views
makeOrgPackageFromNCBI - cannot connect to BioMart
annotationforge
updated 7.1 years ago by 68k • written 7.1 years ago by • 0
1
vote
3
replies
1.7k
views
Running GO analysis via Prostar
prostar proteomics rforproteomics annotationforge
updated 7.3 years ago by ▴ 10 • written 7.3 years ago by ▴ 20
2
votes
2
replies
1.5k
views
Queries around makeOrgPackageFromNCBI
R software error annotationforge
updated 7.3 years ago by ★ 4.1k • written 7.3 years ago by • 0
0
votes
1
reply
1.8k
views
AnnotationForge, RNAseq, and non-model organism
AnnotationForge annotationforge nonmodel rnaseq
updated 7.7 years ago by 68k • written 7.7 years ago by • 0
2
votes
3
replies
2.2k
views
custom annotation for GO enrichment
annotationforge GSEA clusterprofiler GO annotation
8.1 years ago cabezasdelafuented ▴ 10
0
votes
10
replies
2.0k
views
Error during makeOrgPackageFromNCBI
annotationforge makeorgpackagefromncbi
8.1 years ago gabciamm • 0
0
votes
1
reply
2.2k
views
AnnotationForge makeOrgPackage rsqlite_send_query error
annotationforge makeorgpackage
8.2 years ago marisa.e.miller • 0
3
votes
7
replies
3.8k
views
makeOrgPackage in AnnotationForge "GID" problem
annotationforge
updated 8.4 years ago by 68k • written 8.4 years ago by • 0
0
votes
0
replies
1.4k
views
create custom 'System Biology' annotation package - class not found
AnnotationDb annotationdbi AnnotationForge
8.5 years ago Laure Cougnaud ▴ 20
3
votes
6
replies
3.2k
views
RSQLite::dbGetPreparedQuery() is deprecated in AnnotationForge
annotation microarray annotate annotationforge
8.6 years ago MOD • 0
0
votes
14
replies
6.0k
views
Easy way to turn OrgDb object from AnnotationHub into package?
AnnotationHub AnnotationDbi AnnotationForge pathview
8.6 years ago • updated 3.0 years ago Jenny Drnevich ★ 2.0k
1
vote
22
replies
6.0k
views
problem with makeOrgPackageFromNCBI when making an annotation package
bioconductor R annotationforge
updated 8.7 years ago by ▴ 10 • written 9.1 years ago by • 0
0
votes
3
replies
1.8k
views
error while making database using Annotationforge package
annotationforge error database
updated 9.1 years ago by ★ 4.1k • written 9.1 years ago by ▴ 10
5
votes
22
replies
6.5k
views
sqliteSendQuery error in AnnotationForge bioconductor package
bioconductor annotationforge annotationdbi annotation r
updated 9.1 years ago by ★ 1.1k • written 10.5 years ago by • 0
1
vote
4
replies
3.3k
views
AnnotationForge failed due to "Parameter 0 does not have length 1"
AnnotationForge
updated 9.6 years ago by ★ 6.8k • written 9.6 years ago by • 0
0
votes
1
reply
1.4k
views
errors for makeOrgPackageFromNCBI in AnnotationForge
AnnotationForge
updated 9.8 years ago by 16k • written 9.8 years ago by • 0
0
votes
2
replies
2.0k
views
Error in makeOrgPackageFromNCBI for Medicago truncatula
annotation annotationforge
updated 9.8 years ago by 25k • written 9.8 years ago by • 0
64 results • Page 1 of 2
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Answer: ROAST compare results with complex design by James W. MacDonald 68k
You are specifying that the last column of your design should be used as the contrast. You should instead use `contrast[,1]`, which will us…
Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by James W. MacDonald 68k
Yes. You can infer that by figuring out what each coefficient measures. Here is your design matrix: ``` > targets ID Name phase G…
Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by snijesh ▴ 200
I would like to clarify whether the command `res <- results(dds, name = "phaseLP.conditionTreated")` is the correct approach to generate …
Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by James W. MacDonald 68k
Not sure I understand. You ask how to do something and then show how one would do so.
Comment: DiffBind getting Fold values of near 0 by littlefishes20 ▴ 10
Same issues. All peaks return to a fold near 0, although they are significant when visualizing in IGV. Please find the MAplot and volcanoPl…
Votes
How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?
Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi
Can NanoString data be analyzed using DESeq2?
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