Showing : AnnotationForge • reset
5
votes
13
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1.4k
views
Installing annotation package in locally
AnnotationDbi AnnotationHub Annotation AnnotationForge
15 days ago • updated 13 days ago KABILAN • 0
2
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2
replies
183
views
SAS token for Annotation package
AnnotationDbi AnnotationForge
5 weeks ago KABILAN • 0
0
votes
3
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535
views
makeOrgPackageFromGAF() error with gene ID "GID"
AnnotationHub AnnotationDbi AnnotationForge
3 months ago Anna • 0
4
votes
14
replies
1.6k
views
Error: no such table: main.gene2pubmed when running makeOrgPackageFromNCBI() from AnnotationForge
OrganismDb AnnotationForge
5 months ago • updated 4 months ago Ozan • 0
1
vote
2
replies
396
views
Erroe when using makeOrgPackageFromNCBI()
AnnotationForge
5 months ago Patadù ▴ 20
1
vote
8
replies
791
views
Error for AnnotationForge makeOrgPackageFromNCBI function
OrgDb AnnotationForge
updated 25 days ago by 67k • written 6 months ago by • 0
2
votes
28
replies
5.3k
views
Problem making orgdb package for bacteria (Pseudomonas) using annotation hub and annotation forge
AnnotationHub AnnotationForge Pseudomonas_aeruginosa
updated 11 months ago by 67k • written 23 months ago by ▴ 10
2
votes
4
replies
980
views
Question about creating custom organism database with AnnotationForge
AnnotationForge
12 months ago Adrian • 0
2
votes
5
replies
1.2k
views
Help with orgdb for non-model species via makeOrgPackageFromNCBI
AnnotationForge makeOrgPackageFromNCBI
updated 12 months ago by 67k • written 12 months ago by ▴ 80
4
votes
6
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1.4k
views
Query regarding to create custom organism database with AnnotationForge package (AnnotationForge::makeOrgPackageFromNCBI)
AnnotationForge OrganismData OrganismDb
16 months ago abhisek001 • 0
0
votes
1
reply
1.8k
views
Error in .testForValidKeys(x, keys, keytype, fks)
clusterProfiler AnnotationForge
updated 18 months ago by 4.1k • written 18 months ago by • 0
1
vote
15
replies
2.8k
views
AnnotationForge::makeOrgPackageFromNCBI - ERROR to access url (NCBI FTP site)
AnnotationForge
21 months ago • updated 20 months ago Mistinrain ▴ 10
0
votes
1
reply
660
views
AnnotationForge::makeOrgPackageFromNCBI - ERROR to access url (NCBI FTP site)
AnnotationForge
updated 21 months ago by • 0 • written 21 months ago by ▴ 10
1
vote
1
reply
738
views
AnnotationForge::makeOrgPackage "argument is missing, with no default" Errors
AnnotationForge
21 months ago Mistinrain ▴ 10
0
votes
3
replies
954
views
How to handle multiple assay versions in a ChipDb annotation package
ChipDb AnnotationDbi AnnotationForge
updated 21 months ago by 67k • written 22 months ago by • 0
0
votes
2
replies
4.5k
views
Error in h(simpleError(msg, call)) : when calling makeOrgPackagefromNCBI()
biomaRt AnnotationForge
2.5 years ago • updated 2.4 years ago Lan Anh • 0
3
votes
8
replies
3.2k
views
AnnotationForge::makeOrgPackage GO Ids mistake
AnnotationHubData AnnotationForge
2.5 years ago Saber_J ▴ 10
4
votes
2
replies
5.0k
views
Install package without updating dependent package
Install AnnotationForge
2.9 years ago 亮 • 0
0
votes
7
replies
5.4k
views
how to create an OrgDb package?
orgDb annotationForge
updated 2.6 years ago by • 0 • written 3.0 years ago by • 0
1
vote
5
replies
1.8k
views
Gene ID conversion for pathway enrichment analysis of differentially expressed genes
GeneIDConversion AnnotationForge
updated 3.6 years ago by ★ 4.1k • written 3.6 years ago by • 0
0
votes
3
replies
1.5k
views
AnnotationForge: makeOrgPackageFromNCBI Error in function (type, msg, asError = TRUE) : FTP response timeout
AnnotationForge
updated 3.7 years ago by ★ 4.0k • written 3.7 years ago by • 0
2
votes
4
replies
1.2k
views
MakeOrgPackageFromNCBI SQL error
MakeOrgPackageFromNCBI NCBI SQL AnnotationForge
updated 4.5 years ago by 67k • written 4.5 years ago by • 0
4
votes
5
replies
2.2k
views
makeOrgPackage - ERROR: Two fields in the source DB have the same name
software error AnnotationForge AnnotationDbi
updated 4.5 years ago by 67k • written 4.5 years ago by • 0
3
votes
3
replies
982
views
AnnotationForge run by three days and do not end
annotation AnnotationForge
4.5 years ago Marcelo Laia ▴ 450
1
vote
1
reply
1.6k
views
How to get GOSemSim work on custom packages built with AnnotationForge
Guangchuang Yu GOSemSim AnnotationForge
updated 4.5 years ago by ★ 4.0k • written 4.5 years ago by • 0
0
votes
4
replies
1.2k
views
AnnotationForge not working for building custom org packages
AnnotationForge Marc Carlson Hervé Pagès
updated 4.5 years ago by 67k • written 4.6 years ago by • 0
5
votes
7
replies
2.2k
views
Problem with installing packages made by makeOrgPackageFromNCBI
AnnotationForge makeOrgPackageFromNCBI gene ontology edgeR pathwayanalysis
updated 19 months ago by ▴ 50 • written 4.7 years ago by ▴ 20
0
votes
2
replies
1.4k
views
error with downloading NCBI data for makeorgpackagefromNCBI?
annotationforge makeOrgPackageFromNCBI
updated 4.7 years ago by 67k • written 4.7 years ago by • 0
0
votes
2
replies
957
views
makeOrgPackage Error in .deriveTableNameFromField(field = keytype, x) : Two fields in the source DB have the same name
software error go AnnotationForge AnnotationDbi
updated 4.8 years ago by 67k • written 4.8 years ago by • 0
0
votes
0
replies
1.2k
views
topGO::annFUN.org() problem due to case-sensitivity of OrgDb field names
topGO AnnotationForge
5.7 years ago psutton • 0
0
votes
7
replies
2.2k
views
go_bp table in custom OrgDb package
annotation go pcaExplorer AnnotationForge
updated 5.7 years ago by 67k • written 5.7 years ago by • 0
1
vote
7
replies
1.6k
views
Error:object 'lookup_tax_id_by_organism' not found with makeOrgPackageFromNCBI
annotationforge
updated 6.2 years ago by 67k • written 6.2 years ago by • 0
1
vote
3
replies
1.3k
views
makeOrgPackageFromNCBI - cannot connect to BioMart
annotationforge
updated 6.3 years ago by 67k • written 6.3 years ago by • 0
1
vote
3
replies
1.5k
views
Running GO analysis via Prostar
prostar proteomics rforproteomics annotationforge
updated 6.4 years ago by ▴ 10 • written 6.4 years ago by ▴ 20
2
votes
2
replies
1.3k
views
Queries around makeOrgPackageFromNCBI
R software error annotationforge
updated 6.5 years ago by ★ 4.1k • written 6.5 years ago by • 0
0
votes
1
reply
1.5k
views
AnnotationForge, RNAseq, and non-model organism
AnnotationForge annotationforge nonmodel rnaseq
updated 6.9 years ago by 67k • written 6.9 years ago by • 0
2
votes
3
replies
1.9k
views
custom annotation for GO enrichment
annotationforge GSEA clusterprofiler GO annotation
7.2 years ago cabezasdelafuented ▴ 10
0
votes
10
replies
1.7k
views
Error during makeOrgPackageFromNCBI
annotationforge makeorgpackagefromncbi
7.3 years ago gabciamm • 0
0
votes
1
reply
2.0k
views
AnnotationForge makeOrgPackage rsqlite_send_query error
annotationforge makeorgpackage
7.4 years ago marisa.e.miller • 0
3
votes
7
replies
3.0k
views
makeOrgPackage in AnnotationForge "GID" problem
annotationforge
updated 7.6 years ago by 67k • written 7.6 years ago by • 0
0
votes
0
replies
1.3k
views
create custom 'System Biology' annotation package - class not found
AnnotationDb annotationdbi AnnotationForge
7.7 years ago Laure Cougnaud ▴ 20
3
votes
6
replies
2.9k
views
RSQLite::dbGetPreparedQuery() is deprecated in AnnotationForge
annotation microarray annotate annotationforge
7.7 years ago MOD • 0
0
votes
14
replies
5.3k
views
Easy way to turn OrgDb object from AnnotationHub into package?
AnnotationHub AnnotationDbi AnnotationForge pathview
7.8 years ago • updated 2.2 years ago Jenny Drnevich ★ 2.0k
1
vote
22
replies
5.2k
views
problem with makeOrgPackageFromNCBI when making an annotation package
bioconductor R annotationforge
updated 7.8 years ago by ▴ 10 • written 8.3 years ago by • 0
0
votes
3
replies
1.5k
views
error while making database using Annotationforge package
annotationforge error database
updated 8.3 years ago by ★ 4.1k • written 8.3 years ago by ▴ 10
5
votes
22
replies
5.9k
views
sqliteSendQuery error in AnnotationForge bioconductor package
bioconductor annotationforge annotationdbi annotation r
updated 8.3 years ago by ★ 1.0k • written 9.7 years ago by • 0
1
vote
4
replies
2.9k
views
AnnotationForge failed due to "Parameter 0 does not have length 1"
AnnotationForge
updated 8.8 years ago by ★ 6.8k • written 8.8 years ago by • 0
0
votes
1
reply
1.2k
views
errors for makeOrgPackageFromNCBI in AnnotationForge
AnnotationForge
updated 8.9 years ago by 16k • written 8.9 years ago by • 0
0
votes
2
replies
1.8k
views
Error in makeOrgPackageFromNCBI for Medicago truncatula
annotation annotationforge
updated 9.0 years ago by 25k • written 9.0 years ago by • 0
0
votes
2
replies
1.4k
views
makeOrgPackage: possible to add option to allow GO terms now in GO.db?
annotationforge makeorgpackage go
9.4 years ago Keith Hughitt ▴ 180
50 results • Page 1 of 1
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Comment: Consistent Decimals In Data After Antibody Array Background Correction Using Lim by Ai • 0
Hi Gordon, Thank you so much for answering my question and confirming that this is expected! I will go ahead note this down. Sincerely, …
Answer: Annotation for EPICv2 by icecreamlover • 0
Hello, I am also working on analyzing my data from EPICv2 using ChAMP. I used this resource as a guide: https://github.com/YuanTian1991/ChA…
Comment: Combining RNAseq and microarray data using edgeR/limma-voom by James W. MacDonald 67k
And it doesn't matter if you're doing gene set analyses after, if the statistics are questionable to begin with.
Comment: Combining RNAseq and microarray data using edgeR/limma-voom by James W. MacDonald 67k
If you're saying that (as an example) you have treated and control in both assay types, and you want to combine and make comparisons betwee…
Comment: incomplete official symbol mitochondrial genes in org.Hs.eg.db? by Guido Hooiveld ★ 4.1k
I have contacted NCBI, and meanwhile got an an answer. See below. It turns out that the official, HGNC-approved symbols are present in the…
Votes
Answer: Consistent Decimals In Data After Antibody Array Background Correction Using Lim
A: How does edgeR cpm function calculate log(CPM) values?
Answer: DecideTest vs topTAGs in edgeR
Comment: DESeq Input from Salmon + tximport/tximeta
Comment: DESeq Input from Salmon + tximport/tximeta
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Popular Question to James W. MacDonald 67k
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