Showing : annotationforge • reset
1
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22
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4.7k
views
problem with makeOrgPackageFromNCBI when making an annotation package
bioconductor R annotationforge
updated 7.3 years ago by ▴ 10 • written 7.7 years ago by • 0
0
votes
5
replies
2.0k
views
Error during makeOrgPackageFromNCBI
annotation annotationforge annotationdbi makeorgpackagefromncbi
9.3 years ago • updated 9.2 years ago oliver.tills • 0
5
votes
22
replies
5.5k
views
sqliteSendQuery error in AnnotationForge bioconductor package
bioconductor annotationforge annotationdbi annotation r
updated 7.8 years ago by ★ 1.0k • written 9.2 years ago by • 0
0
votes
4
replies
2.3k
views
IlluminaHumanMethylation450k.db has undeclared dependency on AnnotationForge
annotationforge
updated 9.6 years ago by ★ 7.2k • written 9.6 years ago by ★ 3.7k
2
votes
28
replies
4.4k
views
Problem making orgdb package for bacteria (Pseudomonas) using annotation hub and annotation forge
AnnotationHub AnnotationForge Pseudomonas_aeruginosa
updated 5 months ago by 65k • written 16 months ago by ▴ 10
3
votes
6
replies
952
views
Query regarding to create custom organism database with AnnotationForge package (AnnotationForge::makeOrgPackageFromNCBI)
AnnotationForge OrganismData OrganismDb
10 months ago abhisek001 • 0
0
votes
14
replies
4.8k
views
Easy way to turn OrgDb object from AnnotationHub into package?
AnnotationHub AnnotationDbi AnnotationForge pathview
7.2 years ago • updated 20 months ago Jenny Drnevich ★ 2.0k
3
votes
6
replies
2.6k
views
RSQLite::dbGetPreparedQuery() is deprecated in AnnotationForge
annotation microarray annotate annotationforge
7.2 years ago MOD • 0
0
votes
2
replies
1.2k
views
makeOrgPackage: possible to add option to allow GO terms now in GO.db?
annotationforge makeorgpackage go
8.9 years ago Keith Hughitt ▴ 180
0
votes
12
replies
5.3k
views
Have troubles with finding Annotations for Bovine and Rhesus\' platforms
Microarray GO oligo AnnotationForge Microarray GO oligo AnnotationForge
11.2 years ago James W. MacDonald 65k
2
votes
4
replies
994
views
MakeOrgPackageFromNCBI SQL error
MakeOrgPackageFromNCBI NCBI SQL AnnotationForge
updated 4.0 years ago by 65k • written 4.0 years ago by • 0
0
votes
2
replies
1.6k
views
Error in makeOrgPackageFromNCBI for Medicago truncatula
annotation annotationforge
updated 8.5 years ago by 25k • written 8.5 years ago by • 0
1
vote
4
replies
2.7k
views
AnnotationForge failed due to "Parameter 0 does not have length 1"
AnnotationForge
updated 8.3 years ago by ★ 6.8k • written 8.3 years ago by • 0
0
votes
3
replies
1.3k
views
error while making database using Annotationforge package
annotationforge error database
updated 7.8 years ago by ★ 3.9k • written 7.8 years ago by ▴ 10
2
votes
5
replies
761
views
Help with orgdb for non-model species via makeOrgPackageFromNCBI
AnnotationForge makeOrgPackageFromNCBI
updated 6 months ago by 65k • written 6 months ago by ▴ 70
1
vote
3
replies
1.1k
views
makeOrgPackageFromNCBI - cannot connect to BioMart
annotationforge
updated 5.7 years ago by 65k • written 5.8 years ago by • 0
4
votes
5
replies
1.9k
views
makeOrgPackage - ERROR: Two fields in the source DB have the same name
software error AnnotationForge AnnotationDbi
updated 4.0 years ago by 65k • written 4.0 years ago by • 0
0
votes
1
reply
1.7k
views
nsFilter error in genefilter
GO hgu133plus2 cdf GSVA AnnotationForge GO hgu133plus2 cdf GSVA AnnotationForge
updated 10.8 years ago by 65k • written 10.8 years ago by ▴ 90
0
votes
1
reply
1.0k
views
an error in AnnotationForge
Annotation ChipName annotate affy AnnotationForge Annotation ChipName annotate affy
updated 10.7 years ago by ★ 7.2k • written 10.7 years ago by ▴ 50
0
votes
1
reply
1.1k
views
答复: an error in AnnotationForge
Annotation ChipName annotate affy AnnotationForge Annotation ChipName annotate affy
10.7 years ago joseph ▴ 50
1
vote
3
replies
1.7k
views
Bug in makeOrgPackageFromNCBI from AnnotationForge?
Alignment Annotation Organism Schizosaccharomyces pombe biomaRt AnnotationForge Alignment
updated 10.7 years ago by ★ 7.2k • written 10.7 years ago by ▴ 220
0
votes
1
reply
1.4k
views
Error using makeDBPackage() from AnnotationForge package
Annotation probe AnnotationForge Annotation probe AnnotationForge
updated 10.6 years ago by ★ 7.2k • written 10.6 years ago by ▴ 80
1
vote
1
reply
1.8k
views
Mapping Affymetrix annotations with Bioconductor annotations
Annotation Organism zebrafish cdf affy AnnotationForge Annotation Organism zebrafish cdf
updated 10.6 years ago by 65k • written 10.6 years ago by ▴ 80
3
votes
3
replies
8.6k
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 9.6 years ago by ★ 7.2k • written 9.6 years ago by ▴ 80
1
vote
2
replies
2.1k
views
AnnotationForge: org.Xx.eg.db created with makeOrgPackage() is missing org.Xx.egGO object.
organismdb annotationdbi annotationforge
updated 9.6 years ago by ★ 7.2k • written 9.6 years ago by ▴ 80
0
votes
3
replies
1.3k
views
AnnotationForge: makeOrgPackageFromNCBI Error in function (type, msg, asError = TRUE) : FTP response timeout
AnnotationForge
updated 3.1 years ago by ★ 3.9k • written 3.1 years ago by • 0
1
vote
5
replies
1.4k
views
Gene ID conversion for pathway enrichment analysis of differentially expressed genes
GeneIDConversion AnnotationForge
updated 3.1 years ago by ★ 3.9k • written 3.1 years ago by • 0
1
vote
1
reply
517
views
AnnotationForge::makeOrgPackage "argument is missing, with no default" Errors
AnnotationForge
15 months ago Mistinrain ▴ 10
1
vote
15
replies
2.2k
views
AnnotationForge::makeOrgPackageFromNCBI - ERROR to access url (NCBI FTP site)
AnnotationForge
15 months ago • updated 13 months ago Mistinrain ▴ 10
0
votes
7
replies
4.3k
views
how to create an OrgDb package?
orgDb annotationForge
updated 2.0 years ago by • 0 • written 2.5 years ago by • 0
4
votes
2
replies
4.1k
views
Install package without updating dependent package
Install AnnotationForge
2.4 years ago 亮 • 0
2
votes
4
replies
691
views
Question about creating custom organism database with AnnotationForge
AnnotationForge
6 months ago Adrian • 0
0
votes
3
replies
742
views
How to handle multiple assay versions in a ChipDb annotation package
ChipDb AnnotationDbi AnnotationForge
updated 15 months ago by 65k • written 15 months ago by • 0
0
votes
5
replies
252
views
Error for AnnotationForge makeOrgPackageFromNCBI function
OrgDb AnnotationForge
updated 3 days ago by 65k • written 6 days ago by • 0
0
votes
1
reply
1.0k
views
Error in .testForValidKeys(x, keys, keytype, fks)
clusterProfiler AnnotationForge
updated 12 months ago by 3.8k • written 12 months ago by • 0
3
votes
7
replies
2.6k
views
makeOrgPackage in AnnotationForge "GID" problem
annotationforge
updated 7.0 years ago by 65k • written 7.0 years ago by • 0
0
votes
10
replies
1.5k
views
Error during makeOrgPackageFromNCBI
annotationforge makeorgpackagefromncbi
6.8 years ago gabciamm • 0
0
votes
1
reply
1.3k
views
AnnotationForge, RNAseq, and non-model organism
AnnotationForge annotationforge nonmodel rnaseq
updated 6.4 years ago by 65k • written 6.4 years ago by • 0
2
votes
2
replies
1.1k
views
Queries around makeOrgPackageFromNCBI
R software error annotationforge
updated 6.0 years ago by ★ 3.9k • written 6.0 years ago by • 0
1
vote
3
replies
1.3k
views
Running GO analysis via Prostar
prostar proteomics rforproteomics annotationforge
updated 5.9 years ago by ▴ 10 • written 5.9 years ago by ▴ 20
1
vote
7
replies
1.4k
views
Error:object 'lookup_tax_id_by_organism' not found with makeOrgPackageFromNCBI
annotationforge
updated 5.7 years ago by 65k • written 5.7 years ago by • 0
0
votes
7
replies
1.8k
views
go_bp table in custom OrgDb package
annotation go pcaExplorer AnnotationForge
updated 5.1 years ago by 65k • written 5.2 years ago by • 0
0
votes
2
replies
800
views
makeOrgPackage Error in .deriveTableNameFromField(field = keytype, x) : Two fields in the source DB have the same name
software error go AnnotationForge AnnotationDbi
updated 4.3 years ago by 65k • written 4.3 years ago by • 0
0
votes
2
replies
1.1k
views
error with downloading NCBI data for makeorgpackagefromNCBI?
annotationforge makeOrgPackageFromNCBI
updated 4.2 years ago by 65k • written 4.2 years ago by • 0
5
votes
7
replies
1.7k
views
Problem with installing packages made by makeOrgPackageFromNCBI
AnnotationForge makeOrgPackageFromNCBI gene ontology edgeR pathwayanalysis
updated 12 months ago by ▴ 50 • written 4.1 years ago by ▴ 20
0
votes
4
replies
935
views
AnnotationForge not working for building custom org packages
AnnotationForge Marc Carlson Hervé Pagès
updated 4.0 years ago by 65k • written 4.0 years ago by • 0
1
vote
1
reply
1.3k
views
How to get GOSemSim work on custom packages built with AnnotationForge
Guangchuang Yu GOSemSim AnnotationForge
updated 4.0 years ago by ★ 3.9k • written 4.0 years ago by • 0
3
votes
3
replies
758
views
AnnotationForge run by three days and do not end
annotation AnnotationForge
4.0 years ago Marcelo Laia ▴ 450
0
votes
0
replies
1.1k
views
create custom 'System Biology' annotation package - class not found
AnnotationDb annotationdbi AnnotationForge
7.2 years ago Laure Cougnaud ▴ 20
0
votes
1
reply
478
views
AnnotationForge::makeOrgPackageFromNCBI - ERROR to access url (NCBI FTP site)
AnnotationForge
updated 15 months ago by • 0 • written 15 months ago by ▴ 10
50 results • Page 1 of 1
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Comment: Why p value inconsistent when using different number of pathway score? by Chris • 0
Hi Robert, if two conditions don't have hundreds of differential express genes ( in some conditions such as peripheral blood Alzheimer vs n…
Answer: Dominance Index for Shotgun Metagenomics Data by Leo Lahti ▴ 40
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions by Michael Love 41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Votes
Answer: Dominance Index for Shotgun Metagenomics Data
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
Awards • All
Popular Question to Leo Lahti ▴ 40
Scholar to James W. MacDonald 65k
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