Showing : annotationforge • reset
0
votes
8
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269
views
AnnotationForge::makeOrgPackage GO Ids mistake
AnnotationHubData AnnotationForge
26 days ago • updated 24 days ago Saber_J • 0
3
votes
2
replies
758
views
Install package without updating dependent package
Install AnnotationForge
5 months ago 亮 • 0
0
votes
7
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575
views
how to create an OrgDb package?
orgDb annotationForge
updated 5 weeks ago by • 0 • written 7 months ago by • 0
1
vote
5
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494
views
Gene ID conversion for pathway enrichment analysis of differentially expressed genes
GeneIDConversion AnnotationForge
updated 13 months ago by ★ 3.2k • written 13 months ago by • 0
0
votes
3
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410
views
AnnotationForge: makeOrgPackageFromNCBI Error in function (type, msg, asError = TRUE) : FTP response timeout
AnnotationForge
updated 14 months ago by 3.5k • written 14 months ago by • 0
2
votes
4
replies
353
views
MakeOrgPackageFromNCBI SQL error
MakeOrgPackageFromNCBI NCBI SQL AnnotationForge
updated 2.0 years ago by 59k • written 2.0 years ago by • 0
4
votes
5
replies
759
views
makeOrgPackage - ERROR: Two fields in the source DB have the same name
software error AnnotationForge AnnotationDbi
updated 2.0 years ago by 59k • written 2.0 years ago by • 0
3
votes
3
replies
242
views
AnnotationForge run by three days and do not end
annotation AnnotationForge
2.1 years ago • updated 2.0 years ago Marcelo Laia ▴ 450
1
vote
1
reply
527
views
How to get GOSemSim work on custom packages built with AnnotationForge
Guangchuang Yu GOSemSim AnnotationForge
updated 2.1 years ago by 3.5k • written 2.1 years ago by • 0
0
votes
4
replies
285
views
AnnotationForge not working for building custom org packages
AnnotationForge Marc Carlson Hervé Pagès
updated 2.1 years ago by 59k • written 2.1 years ago by • 0
0
votes
6
replies
353
views
Problem with installing packages made by makeOrgPackageFromNCBI
AnnotationForge makeOrgPackageFromNCBI gene ontology edgeR pathwayanalysis
updated 2.2 years ago by 59k • written 2.2 years ago by • 0
0
votes
2
replies
345
views
error with downloading NCBI data for makeorgpackagefromNCBI?
annotationforge makeOrgPackageFromNCBI
updated 2.2 years ago by 59k • written 2.2 years ago by • 0
0
votes
2
replies
267
views
makeOrgPackage Error in .deriveTableNameFromField(field = keytype, x) : Two fields in the source DB have the same name
software error go AnnotationForge AnnotationDbi
updated 2.3 years ago by 59k • written 2.3 years ago by • 0
0
votes
0
replies
543
views
topGO::annFUN.org() problem due to case-sensitivity of OrgDb field names
topGO AnnotationForge
3.2 years ago psutton • 0
0
votes
7
replies
843
views
go_bp table in custom OrgDb package
annotation go pcaExplorer AnnotationForge
updated 3.2 years ago by 59k • written 3.2 years ago by • 0
1
vote
7
replies
621
views
Error:object 'lookup_tax_id_by_organism' not found with makeOrgPackageFromNCBI
annotationforge
updated 3.7 years ago by 59k • written 3.7 years ago by • 0
1
vote
3
replies
630
views
makeOrgPackageFromNCBI - cannot connect to BioMart
annotationforge
updated 3.8 years ago by 59k • written 3.8 years ago by • 0
1
vote
3
replies
804
views
Running GO analysis via Prostar
prostar proteomics rforproteomics annotationforge
updated 4.0 years ago by ▴ 10 • written 4.0 years ago by ▴ 20
2
votes
2
replies
601
views
Queries around makeOrgPackageFromNCBI
R software error annotationforge
updated 4.1 years ago by ★ 3.2k • written 4.1 years ago by • 0
0
votes
1
reply
764
views
AnnotationForge, RNAseq, and non-model organism
AnnotationForge annotationforge nonmodel rnaseq
updated 4.4 years ago by 59k • written 4.4 years ago by • 0
2
votes
3
replies
1.2k
views
custom annotation for GO enrichment
annotationforge GSEA clusterprofiler GO annotation
4.8 years ago cabezasdelafuented ▴ 10
0
votes
10
replies
791
views
Error during makeOrgPackageFromNCBI
annotationforge makeorgpackagefromncbi
4.8 years ago gabciamm • 0
0
votes
1
reply
1.2k
views
AnnotationForge makeOrgPackage rsqlite_send_query error
annotationforge makeorgpackage
4.9 years ago marisa.e.miller • 0
3
votes
7
replies
1.4k
views
makeOrgPackage in AnnotationForge "GID" problem
annotationforge
updated 5.1 years ago by 59k • written 5.1 years ago by • 0
0
votes
0
replies
743
views
create custom 'System Biology' annotation package - class not found
AnnotationDb annotationdbi AnnotationForge
5.3 years ago Laure Cougnaud ▴ 20
3
votes
6
replies
1.7k
views
RSQLite::dbGetPreparedQuery() is deprecated in AnnotationForge
annotation microarray annotate annotationforge
5.3 years ago MOD • 0
0
votes
12
replies
2.7k
views
Easy way to turn OrgDb object from AnnotationHub into package?
AnnotationHub AnnotationDbi AnnotationForge pathview
updated 5.3 years ago by ★ 6.7k • written 5.3 years ago by ★ 2.0k
1
vote
22
replies
2.8k
views
problem with makeOrgPackageFromNCBI when making an annotation package
bioconductor R annotationforge
updated 5.4 years ago by ▴ 10 • written 5.8 years ago by • 0
0
votes
3
replies
734
views
error while making database using Annotationforge package
annotationforge error database
updated 5.8 years ago by ★ 3.2k • written 5.8 years ago by ▴ 10
5
votes
22
replies
4.3k
views
sqliteSendQuery error in AnnotationForge bioconductor package
bioconductor annotationforge annotationdbi annotation r
updated 5.8 years ago by ▴ 990 • written 7.3 years ago by • 0
1
vote
4
replies
1.8k
views
AnnotationForge failed due to "Parameter 0 does not have length 1"
AnnotationForge
updated 6.4 years ago by ★ 6.7k • written 6.4 years ago by • 0
0
votes
1
reply
698
views
errors for makeOrgPackageFromNCBI in AnnotationForge
AnnotationForge
updated 6.5 years ago by 15k • written 6.5 years ago by • 0
0
votes
2
replies
1.0k
views
Error in makeOrgPackageFromNCBI for Medicago truncatula
annotation annotationforge
updated 6.5 years ago by 25k • written 6.5 years ago by • 0
0
votes
2
replies
818
views
makeOrgPackage: possible to add option to allow GO terms now in GO.db?
annotationforge makeorgpackage go
6.9 years ago Keith Hughitt ▴ 150
0
votes
5
replies
1.4k
views
Error during makeOrgPackageFromNCBI
annotation annotationforge annotationdbi makeorgpackagefromncbi
7.3 years ago oliver.tills • 0
0
votes
4
replies
1.7k
views
IlluminaHumanMethylation450k.db has undeclared dependency on AnnotationForge
annotationforge
updated 7.6 years ago by ★ 7.2k • written 7.7 years ago by ★ 3.7k
1
vote
2
replies
1.4k
views
AnnotationForge: org.Xx.eg.db created with makeOrgPackage() is missing org.Xx.egGO object.
organismdb annotationdbi annotationforge
updated 7.7 years ago by ★ 7.2k • written 7.7 years ago by ▴ 80
3
votes
9
replies
1.9k
views
Create object "Go3AnnDbBimap" and include it in a org.Xx.eg.db package to use with goProfiles and goTools
goprofiles AnnotationForge Bimap GO
7.7 years ago artur ▴ 80
3
votes
3
replies
6.9k
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 7.7 years ago by ★ 7.2k • written 7.7 years ago by ▴ 80
0
votes
0
replies
804
views
Failure to Install Organism Package from AnnotationForge
Organism AnnotationDbi AnnotationForge Organism AnnotationDbi AnnotationForge
8.3 years ago Guest User ★ 12k
1
vote
1
reply
1.5k
views
Mapping Affymetrix annotations with Bioconductor annotations
Annotation Organism zebrafish cdf affy AnnotationForge Annotation Organism zebrafish cdf
updated 8.6 years ago by 59k • written 8.6 years ago by ▴ 80
0
votes
1
reply
1.1k
views
Error using makeDBPackage() from AnnotationForge package
Annotation probe AnnotationForge Annotation probe AnnotationForge
updated 8.7 years ago by ★ 7.2k • written 8.7 years ago by ▴ 80
1
vote
3
replies
1.1k
views
Bug in makeOrgPackageFromNCBI from AnnotationForge?
Alignment Annotation Organism Schizosaccharomyces pombe biomaRt AnnotationForge Alignment
updated 8.7 years ago by ★ 7.2k • written 8.7 years ago by ▴ 220
0
votes
1
reply
750
views
答复: an error in AnnotationForge
Annotation ChipName annotate affy AnnotationForge Annotation ChipName annotate affy
8.8 years ago joseph ▴ 40
0
votes
1
reply
699
views
an error in AnnotationForge
Annotation ChipName annotate affy AnnotationForge Annotation ChipName annotate affy
updated 8.8 years ago by ★ 7.2k • written 8.8 years ago by ▴ 40
0
votes
1
reply
1.2k
views
nsFilter error in genefilter
GO hgu133plus2 cdf GSVA AnnotationForge GO hgu133plus2 cdf GSVA AnnotationForge
updated 8.9 years ago by 59k • written 8.9 years ago by ▴ 90
0
votes
12
replies
3.1k
views
Have troubles with finding Annotations for Bovine and Rhesus\' platforms
Microarray GO oligo AnnotationForge Microarray GO oligo AnnotationForge
9.3 years ago James W. MacDonald 59k
47 results • Page 1 of 1
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Comment: how to make a group to apply the data to CAMERA by Akira • 0
Thank you so much for your quick answer!! I will look into them! I appreciate your kind support.
Comment: performing the differential binding in ChIP-seq by Bogdan ▴ 640
I am asking the question because we have two sets of ChIP-seq data for a histone mark (lets' say H3K4me1) that were generated with : <> an…
Comment: performing the differential binding in ChIP-seq by Bogdan ▴ 640
Thank you. Yes, DiffBind might be a good choice shall we have replicates per sample. Another choice is MA-norm2. Any other well-tested sug…
Comment: Error using read.ilmn and neqc by Gordon Smyth 45k
I edited the title of your question to be more specific.
Answer: Using limma to read Illumina HT-12 v4 data by Gordon Smyth 45k
It seems clear that you haven't exported the correct intensity data from GenomeStudio, and I think you recognize that yourself in your ques…
Votes
Answer: how to make a group to apply the data to CAMERA
Answer: how to make a group to apply the data to CAMERA
Comment: Using vegan::betadisper for determing if I subset my design for DESeq2
Answer: How to best visualize multi-level transcriptomics experiment data?
A: Interpreting results of sample-to-sample PCA/clustering and changing assignment
Awards • All
Scholar to Gordon Smyth 45k
Popular Question to andrebolerbarros ▴ 10
Scholar to James W. MacDonald 59k
Scholar to Guido Hooiveld ★ 3.2k
Scholar to Kevin Blighe 3.5k
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