Showing : annotationforge • reset
1
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5
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Gene ID conversion for pathway enrichment analysis of differentially expressed genes
GeneIDConversion AnnotationForge
updated 9 weeks ago by ★ 3.0k • written 11 weeks ago by • 0
0
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3
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174
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AnnotationForge: makeOrgPackageFromNCBI Error in function (type, msg, asError = TRUE) : FTP response timeout
AnnotationForge
updated 3 months ago by 3.1k • written 3 months ago by • 0
2
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4
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151
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MakeOrgPackageFromNCBI SQL error
MakeOrgPackageFromNCBI NCBI SQL AnnotationForge
updated 13 months ago by 57k • written 13 months ago by • 0
4
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5
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351
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makeOrgPackage - ERROR: Two fields in the source DB have the same name
software error AnnotationForge AnnotationDbi
updated 13 months ago by 57k • written 13 months ago by • 0
3
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3
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122
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AnnotationForge run by three days and do not end
annotation AnnotationForge
13 months ago Marcelo Laia ▴ 440
1
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1
reply
240
views
How to get GOSemSim work on custom packages built with AnnotationForge
Guangchuang Yu GOSemSim AnnotationForge
updated 13 months ago by 3.1k • written 13 months ago by • 0
0
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4
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151
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AnnotationForge not working for building custom org packages
AnnotationForge Marc Carlson Hervé Pagès
updated 14 months ago by 57k • written 14 months ago by • 0
0
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6
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154
views
Problem with installing packages made by makeOrgPackageFromNCBI
AnnotationForge makeOrgPackageFromNCBI gene ontology edgeR pathwayanalysis
updated 15 months ago by 57k • written 15 months ago by • 0
0
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2
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132
views
error with downloading NCBI data for makeorgpackagefromNCBI?
annotationforge makeOrgPackageFromNCBI
updated 16 months ago by 57k • written 16 months ago by • 0
0
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2
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124
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makeOrgPackage Error in .deriveTableNameFromField(field = keytype, x) : Two fields in the source DB have the same name
software error go AnnotationForge AnnotationDbi
updated 16 months ago by 57k • written 16 months ago by • 0
0
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0
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314
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topGO::annFUN.org() problem due to case-sensitivity of OrgDb field names
topGO AnnotationForge
2.3 years ago psutton • 0
0
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7
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540
views
go_bp table in custom OrgDb package
annotation go pcaExplorer AnnotationForge
updated 2.3 years ago by 57k • written 2.3 years ago by • 0
1
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7
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423
views
Error:object 'lookup_tax_id_by_organism' not found with makeOrgPackageFromNCBI
annotationforge
updated 2.8 years ago by 57k • written 2.8 years ago by • 0
1
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3
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475
views
makeOrgPackageFromNCBI - cannot connect to BioMart
annotationforge
updated 2.9 years ago by 57k • written 2.9 years ago by • 0
1
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3
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456
views
Running GO analysis via Prostar
prostar proteomics rforproteomics annotationforge
updated 3.0 years ago by • 0 • written 3.0 years ago by ▴ 20
2
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2
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449
views
Queries around makeOrgPackageFromNCBI
R software error annotationforge
updated 3.1 years ago by ★ 3.0k • written 3.1 years ago by • 0
0
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1
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587
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AnnotationForge, RNAseq, and non-model organism
AnnotationForge annotationforge nonmodel rnaseq
updated 3.5 years ago by 57k • written 3.5 years ago by • 0
2
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3
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1.1k
views
custom annotation for GO enrichment
annotationforge GSEA clusterprofiler GO annotation
3.9 years ago cabezasdelafuented ▴ 10
0
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10
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622
views
Error during makeOrgPackageFromNCBI
annotationforge makeorgpackagefromncbi
3.9 years ago gabciamm • 0
0
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1
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1.0k
views
AnnotationForge makeOrgPackage rsqlite_send_query error
annotationforge makeorgpackage
4.0 years ago marisa.e.miller • 0
3
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7
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1.0k
views
makeOrgPackage in AnnotationForge "GID" problem
annotationforge
updated 4.2 years ago by 57k • written 4.2 years ago by • 0
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0
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650
views
create custom 'System Biology' annotation package - class not found
AnnotationDb annotationdbi AnnotationForge
4.3 years ago Laure Cougnaud ▴ 20
3
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6
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1.4k
views
RSQLite::dbGetPreparedQuery() is deprecated in AnnotationForge
annotation microarray annotate annotationforge
4.3 years ago MOD • 0
0
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12
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2.0k
views
Easy way to turn OrgDb object from AnnotationHub into package?
AnnotationHub AnnotationDbi AnnotationForge pathview
updated 4.4 years ago by ★ 6.7k • written 4.4 years ago by ★ 2.0k
1
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22
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2.0k
views
problem with makeOrgPackageFromNCBI when making an annotation package
bioconductor R annotationforge
updated 4.4 years ago by ▴ 10 • written 4.9 years ago by • 0
0
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3
replies
575
views
error while making database using Annotationforge package
annotationforge error database
updated 4.9 years ago by ★ 3.0k • written 4.9 years ago by ▴ 10
5
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22
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3.9k
views
sqliteSendQuery error in AnnotationForge bioconductor package
bioconductor annotationforge annotationdbi annotation r
updated 4.9 years ago by ▴ 980 • written 6.3 years ago by • 0
0
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4
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1.4k
views
AnnotationForge failed due to "Parameter 0 does not have length 1"
AnnotationForge
updated 5.4 years ago by ★ 6.7k • written 5.4 years ago by • 0
0
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1
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582
views
errors for makeOrgPackageFromNCBI in AnnotationForge
AnnotationForge
updated 5.5 years ago by 15k • written 5.5 years ago by • 0
0
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2
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814
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Error in makeOrgPackageFromNCBI for Medicago truncatula
annotation annotationforge
updated 5.6 years ago by 25k • written 5.6 years ago by • 0
0
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2
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691
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makeOrgPackage: possible to add option to allow GO terms now in GO.db?
annotationforge makeorgpackage go
6.0 years ago Keith Hughitt ▴ 130
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5
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1.3k
views
Error during makeOrgPackageFromNCBI
annotation annotationforge annotationdbi makeorgpackagefromncbi
6.4 years ago oliver.tills • 0
0
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4
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1.6k
views
IlluminaHumanMethylation450k.db has undeclared dependency on AnnotationForge
annotationforge
updated 6.7 years ago by ★ 7.2k • written 6.7 years ago by ★ 3.7k
1
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2
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1.2k
views
AnnotationForge: org.Xx.eg.db created with makeOrgPackage() is missing org.Xx.egGO object.
organismdb annotationdbi annotationforge
updated 6.7 years ago by ★ 7.2k • written 6.7 years ago by ▴ 80
3
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9
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1.6k
views
Create object "Go3AnnDbBimap" and include it in a org.Xx.eg.db package to use with goProfiles and goTools
goprofiles AnnotationForge Bimap GO
6.7 years ago artur ▴ 80
3
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3
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6.2k
views
error: "'names' attribute [16] must be the same length as the vector [2]", using Making Organism packages use of makeOrgPackage()
annotationforge Annotation GO
updated 6.7 years ago by ★ 7.2k • written 6.8 years ago by ▴ 80
0
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0
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701
views
Failure to Install Organism Package from AnnotationForge
Organism AnnotationDbi AnnotationForge Organism AnnotationDbi AnnotationForge
7.3 years ago Guest User ★ 12k
1
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1
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1.3k
views
Mapping Affymetrix annotations with Bioconductor annotations
Annotation Organism zebrafish cdf affy AnnotationForge Annotation Organism zebrafish cdf
updated 7.7 years ago by 57k • written 7.7 years ago by ▴ 80
0
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1
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943
views
Error using makeDBPackage() from AnnotationForge package
Annotation probe AnnotationForge Annotation probe AnnotationForge
updated 7.8 years ago by ★ 7.2k • written 7.8 years ago by ▴ 80
1
vote
3
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858
views
Bug in makeOrgPackageFromNCBI from AnnotationForge?
Alignment Annotation Organism Schizosaccharomyces pombe biomaRt AnnotationForge Alignment
updated 7.8 years ago by ★ 7.2k • written 7.8 years ago by ▴ 220
0
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1
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599
views
答复: an error in AnnotationForge
Annotation ChipName annotate affy AnnotationForge Annotation ChipName annotate affy
7.9 years ago joseph ▴ 40
0
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1
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580
views
an error in AnnotationForge
Annotation ChipName annotate affy AnnotationForge Annotation ChipName annotate affy
updated 7.9 years ago by ★ 7.2k • written 7.9 years ago by ▴ 40
0
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1
reply
1.0k
views
nsFilter error in genefilter
GO hgu133plus2 cdf GSVA AnnotationForge GO hgu133plus2 cdf GSVA AnnotationForge
updated 7.9 years ago by 57k • written 7.9 years ago by ▴ 90
0
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12
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2.7k
views
Have troubles with finding Annotations for Bovine and Rhesus\' platforms
Microarray GO oligo AnnotationForge Microarray GO oligo AnnotationForge
8.3 years ago James W. MacDonald 57k
44 results • Page 1 of 1
Recent ...
Replies
Answer: Statistical Bioinformatics Laboratory Head, WEHI, Melbourne, Australia by Gordon Smyth 43k
A reminder that applications close tomorrow, at 5pm 15 June (Eastern Australian time).
Answer: No counts, just fold change data by swbarnes2 ▴ 770
> in order to connect the differentially expressed genes to pathways, > filter what is relevant and further analyse the network. I thin…
Comment: How to do annotation with Limma by James W. MacDonald 57k
I should also point out that the fid isn't really the probe ID. For this array (and IIRC all of the random-primer arrays), there really isn…
Comment: How to do annotation with Limma by James W. MacDonald 57k
The probe IDs are different from the probeset IDs, and are usually not of interest. Each probeset is made up of 4 or more probes (depending…
Comment: How to do annotation with Limma by 1gagoogag1 • 0
Thank you so much for your explanation! I have a question about how can I get the probeIDs and are they different from the probe set ID?
Votes
How to select summit size for histone ChiP-Seq in Diffbind
A: How to select summit size for histone ChiP-Seq in Diffbind
Correct use of TMM / normalization factors based on large bins
Answer: How to do annotation with Limma
Final List of Deprecated Packages for Bioc3.13
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Popular Question to Gordon Smyth 43k
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