Showing : AnnotationForge • reset
3
votes
7
replies
822
views
makeChipPackage(): Error in data.frame(..., check.names = FALSE) : arguments imply differing number of rows:
AnnotationForge
updated 4 months ago by 68k • written 5 months ago by • 0
5
votes
13
replies
2.5k
views
Installing annotation package in locally
AnnotationDbi AnnotationHub Annotation AnnotationForge
14 months ago KABILAN • 0
2
votes
2
replies
615
views
SAS token for Annotation package
AnnotationDbi AnnotationForge
15 months ago KABILAN • 0
0
votes
3
replies
1.6k
views
makeOrgPackageFromGAF() error with gene ID "GID"
AnnotationHub AnnotationDbi AnnotationForge
17 months ago Anna • 0
4
votes
14
replies
2.7k
views
Error: no such table: main.gene2pubmed when running makeOrgPackageFromNCBI() from AnnotationForge
OrganismDb AnnotationForge
19 months ago Ozan • 0
1
vote
2
replies
1.0k
views
Erroe when using makeOrgPackageFromNCBI()
AnnotationForge
20 months ago Patadù ▴ 20
1
vote
8
replies
1.6k
views
Error for AnnotationForge makeOrgPackageFromNCBI function
OrgDb AnnotationForge
updated 15 months ago by 68k • written 20 months ago by • 0
2
votes
28
replies
7.3k
views
Problem making orgdb package for bacteria (Pseudomonas) using annotation hub and annotation forge
AnnotationHub AnnotationForge Pseudomonas_aeruginosa
updated 2.1 years ago by 68k • written 3.1 years ago by ▴ 10
2
votes
4
replies
1.5k
views
Question about creating custom organism database with AnnotationForge
AnnotationForge
2.2 years ago Adrian • 0
2
votes
5
replies
1.9k
views
Help with orgdb for non-model species via makeOrgPackageFromNCBI
AnnotationForge makeOrgPackageFromNCBI
updated 2.2 years ago by 68k • written 2.2 years ago by ▴ 80
4
votes
6
replies
2.1k
views
Query regarding to create custom organism database with AnnotationForge package (AnnotationForge::makeOrgPackageFromNCBI)
AnnotationForge OrganismData OrganismDb
2.5 years ago abhisek001 • 0
0
votes
1
reply
2.7k
views
Error in .testForValidKeys(x, keys, keytype, fks)
clusterProfiler AnnotationForge
updated 2.7 years ago by 4.2k • written 2.7 years ago by • 0
1
vote
15
replies
4.1k
views
AnnotationForge::makeOrgPackageFromNCBI - ERROR to access url (NCBI FTP site)
AnnotationForge
2.9 years ago • updated 2.8 years ago Mistinrain ▴ 10
0
votes
1
reply
970
views
AnnotationForge::makeOrgPackageFromNCBI - ERROR to access url (NCBI FTP site)
AnnotationForge
updated 2.9 years ago by • 0 • written 2.9 years ago by ▴ 10
1
vote
1
reply
1.1k
views
AnnotationForge::makeOrgPackage "argument is missing, with no default" Errors
AnnotationForge
2.9 years ago Mistinrain ▴ 10
0
votes
3
replies
1.4k
views
How to handle multiple assay versions in a ChipDb annotation package
ChipDb AnnotationDbi AnnotationForge
updated 3.0 years ago by 68k • written 3.0 years ago by • 0
0
votes
2
replies
5.2k
views
Error in h(simpleError(msg, call)) : when calling makeOrgPackagefromNCBI()
biomaRt AnnotationForge
3.6 years ago Lan Anh • 0
3
votes
8
replies
4.4k
views
AnnotationForge::makeOrgPackage GO Ids mistake
AnnotationHubData AnnotationForge
3.7 years ago Saber_J ▴ 10
4
votes
2
replies
6.7k
views
Install package without updating dependent package
Install AnnotationForge
4.1 years ago 亮 • 0
0
votes
7
replies
6.9k
views
how to create an OrgDb package?
orgDb annotationForge
updated 3.7 years ago by • 0 • written 4.2 years ago by ▴ 20
1
vote
5
replies
2.4k
views
Gene ID conversion for pathway enrichment analysis of differentially expressed genes
GeneIDConversion AnnotationForge
updated 4.8 years ago by ★ 4.1k • written 4.8 years ago by • 0
0
votes
3
replies
1.9k
views
AnnotationForge: makeOrgPackageFromNCBI Error in function (type, msg, asError = TRUE) : FTP response timeout
AnnotationForge
updated 4.8 years ago by ★ 4.0k • written 4.8 years ago by • 0
2
votes
4
replies
1.6k
views
MakeOrgPackageFromNCBI SQL error
MakeOrgPackageFromNCBI NCBI SQL AnnotationForge
updated 5.7 years ago by 68k • written 5.7 years ago by • 0
4
votes
5
replies
2.8k
views
makeOrgPackage - ERROR: Two fields in the source DB have the same name
software error AnnotationForge AnnotationDbi
updated 5.7 years ago by 68k • written 5.7 years ago by • 0
3
votes
3
replies
1.4k
views
AnnotationForge run by three days and do not end
annotation AnnotationForge
5.7 years ago Marcelo Laia ▴ 450
1
vote
1
reply
2.3k
views
How to get GOSemSim work on custom packages built with AnnotationForge
Guangchuang Yu GOSemSim AnnotationForge
updated 5.7 years ago by ★ 4.0k • written 5.7 years ago by • 0
0
votes
4
replies
1.7k
views
AnnotationForge not working for building custom org packages
AnnotationForge Marc Carlson Hervé Pagès
updated 5.7 years ago by 68k • written 5.7 years ago by • 0
5
votes
7
replies
3.0k
views
Problem with installing packages made by makeOrgPackageFromNCBI
AnnotationForge makeOrgPackageFromNCBI gene ontology edgeR pathwayanalysis
updated 2.7 years ago by ▴ 50 • written 5.8 years ago by ▴ 20
0
votes
2
replies
2.1k
views
error with downloading NCBI data for makeorgpackagefromNCBI?
annotationforge makeOrgPackageFromNCBI
updated 5.9 years ago by 68k • written 5.9 years ago by • 0
0
votes
2
replies
1.3k
views
makeOrgPackage Error in .deriveTableNameFromField(field = keytype, x) : Two fields in the source DB have the same name
software error go AnnotationForge AnnotationDbi
updated 6.0 years ago by 68k • written 6.0 years ago by • 0
0
votes
0
replies
1.6k
views
topGO::annFUN.org() problem due to case-sensitivity of OrgDb field names
topGO AnnotationForge
6.8 years ago psutton • 0
0
votes
7
replies
2.8k
views
go_bp table in custom OrgDb package
annotation go pcaExplorer AnnotationForge
updated 6.8 years ago by 68k • written 6.8 years ago by • 0
1
vote
7
replies
2.1k
views
Error:object 'lookup_tax_id_by_organism' not found with makeOrgPackageFromNCBI
annotationforge
updated 7.4 years ago by 68k • written 7.4 years ago by • 0
1
vote
3
replies
1.6k
views
makeOrgPackageFromNCBI - cannot connect to BioMart
annotationforge
updated 7.4 years ago by 68k • written 7.4 years ago by • 0
1
vote
3
replies
1.9k
views
Running GO analysis via Prostar
prostar proteomics rforproteomics annotationforge
updated 7.6 years ago by ▴ 10 • written 7.6 years ago by ▴ 20
2
votes
2
replies
1.6k
views
Queries around makeOrgPackageFromNCBI
R software error annotationforge
updated 7.7 years ago by ★ 4.1k • written 7.7 years ago by • 0
0
votes
1
reply
1.9k
views
AnnotationForge, RNAseq, and non-model organism
AnnotationForge annotationforge nonmodel rnaseq
updated 8.1 years ago by 68k • written 8.1 years ago by • 0
2
votes
3
replies
2.3k
views
custom annotation for GO enrichment
annotationforge GSEA clusterprofiler GO annotation
8.4 years ago cabezasdelafuented ▴ 10
0
votes
10
replies
2.2k
views
Error during makeOrgPackageFromNCBI
annotationforge makeorgpackagefromncbi
8.5 years ago gabciamm • 0
0
votes
1
reply
2.4k
views
AnnotationForge makeOrgPackage rsqlite_send_query error
annotationforge makeorgpackage
8.5 years ago marisa.e.miller • 0
3
votes
7
replies
4.1k
views
makeOrgPackage in AnnotationForge "GID" problem
annotationforge
updated 8.7 years ago by 68k • written 8.7 years ago by • 0
0
votes
0
replies
1.5k
views
create custom 'System Biology' annotation package - class not found
AnnotationDb annotationdbi AnnotationForge
8.9 years ago Laure Cougnaud ▴ 20
3
votes
6
replies
3.4k
views
RSQLite::dbGetPreparedQuery() is deprecated in AnnotationForge
annotation microarray annotate annotationforge
8.9 years ago MOD • 0
0
votes
14
replies
6.4k
views
Easy way to turn OrgDb object from AnnotationHub into package?
AnnotationHub AnnotationDbi AnnotationForge pathview
8.9 years ago • updated 3.4 years ago Jenny Drnevich ★ 2.0k
1
vote
22
replies
6.5k
views
problem with makeOrgPackageFromNCBI when making an annotation package
bioconductor R annotationforge
updated 9.0 years ago by ▴ 10 • written 9.4 years ago by • 0
0
votes
3
replies
2.0k
views
error while making database using Annotationforge package
annotationforge error database
updated 9.5 years ago by ★ 4.1k • written 9.5 years ago by ▴ 10
5
votes
22
replies
6.9k
views
sqliteSendQuery error in AnnotationForge bioconductor package
bioconductor annotationforge annotationdbi annotation r
updated 9.5 years ago by ★ 1.1k • written 10.9 years ago by • 0
1
vote
4
replies
3.4k
views
AnnotationForge failed due to "Parameter 0 does not have length 1"
AnnotationForge
updated 10.0 years ago by ★ 6.8k • written 10.0 years ago by • 0
0
votes
1
reply
1.4k
views
errors for makeOrgPackageFromNCBI in AnnotationForge
AnnotationForge
updated 10.1 years ago by 16k • written 10.1 years ago by • 0
0
votes
2
replies
2.1k
views
Error in makeOrgPackageFromNCBI for Medicago truncatula
annotation annotationforge
updated 10.2 years ago by 25k • written 10.2 years ago by • 0
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Comment: Ensembl plants at annotationHub? by jwp48 • 0
Nope I don't mind haha! Anyway thanks so much! Thats super kind of you!
Answer: Combining two proteomics datasets with limpa by Gordon Smyth 53k
Hi Andrew, We don't have that much experience combining different datasets with limpa yet, but my feeling is that the same DPC should be u…
Comment: Guitar R package requires update due to dependency GenomicFeatures by ferran.llobet.cabau ▴ 10
Thank you @seandavi for your feedback. I followed your recommendations and generated a [pull request][1] including the fix for this issue…
Comment: Ensembl plants at annotationHub? by Guido Hooiveld ★ 4.1k
Hope you don't mind I am not Johannes... ;-) Note that you nowadays can generate these yourselves using the `docker` image Johannes made av…
Comment: How does contrasts.fit do in limma to extract comparisons with a model having in by jtsy6383 • 0
Thanks for the reminder about DiffVar (for that project I ended up using GAMLSS in the end and haven't touched DiffVar since) and the alter…
Votes
A: What is logFC and "B" in methylation analysis ??
limma moderated t-statistics and B-statistics
Comment: Guitar R package requires update due to dependency GenomicFeatures
A: how to control age and gender effect in expression data using DESeq2
A: how to control age and gender effect in expression data using DESeq2
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