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Showing :
geoquery
•
reset
3
votes
23
replies
3.8k
views
GEOquery run into problem with Sys.setenv("VROOM_CONNECTION_SIZE")
GEOquery
VROOM
2.4 years ago
array chip
▴ 420
2
votes
15
replies
9.3k
views
GEOquery: getGEO() doesn\'t work (error \"invalid \'nlines\' argument\")
GEOquery
GEOquery
updated 11.9 years ago by
James W. MacDonald
65k • written 11.9 years ago by
Guest User
★ 13k
5
votes
14
replies
14k
views
How to load GEO series matrix file in R Bioconductor
geoquery
updated 8.8 years ago by
Sean Davis
21k • written 8.8 years ago by
ayanava18
▴ 10
2
votes
13
replies
2.8k
views
SCAN.UPC: exception thrown when loading GEOQuery
scan.upc
geoquery
rcurl
9.3 years ago
lep
▴ 90
5
votes
12
replies
2.6k
views
Using eset while parsing GSE file located in a path
GEO
geoquery
updated 5.6 years ago by
Sean Davis
21k • written 5.6 years ago by
mahm
▴ 20
3
votes
11
replies
3.9k
views
GEOquery http:// url error
geoquery
error
getgeo
microarray
geo
updated 6.3 years ago by
Sean Davis
21k • written 7.0 years ago by
jblack29
• 0
3
votes
11
replies
2.4k
views
Filtering Gene Symbols and Sample Description from GSE files of GEO
gene expression
geoquery
GSE
bioconductor
microarray
updated 5.7 years ago by
Sean Davis
21k • written 5.7 years ago by
mahm
▴ 20
0
votes
8
replies
2.9k
views
GEOquery Error
GEOquery
GEOquery
updated 12.2 years ago by
Sean Davis
21k • written 12.2 years ago by
ying chen
▴ 340
4
votes
8
replies
6.9k
views
getGEO - cannot Open URL issue
getGEO
R
GEOquery
8.5 years ago
alptaciroglu
▴ 50
1
vote
7
replies
1.6k
views
model.matrix from GDS data
model.matrix
lmFit
eBayes
GEOquery
limma
6.2 years ago
darthratus
• 0
10
votes
7
replies
2.4k
views
SummarizedExperiment object from GEOquery obtained GSE
geoquery
summarizedexperiment
GEO
matrix
updated 6.3 years ago by
Sean Davis
21k • written 6.3 years ago by
rbronste
▴ 60
6
votes
7
replies
2.2k
views
GEOquery reading error on Windows.
GEOquery
GEO
Gene
updated 2.5 years ago by
James W. MacDonald
65k • written 2.5 years ago by
Caitlin
▴ 50
0
votes
7
replies
3.2k
views
Normalizing Expressionset Exprs without Raw CEL files
geoquery
normalization
updated 9.5 years ago by
Stephen Piccolo
▴ 590 • written 9.5 years ago by
PyPer
▴ 20
2
votes
7
replies
1.4k
views
Not able to reproduce limma results from affy chip with or without CEL file from 2 GSE datasets
limma
GEOquery
affy
updated 7.1 years ago by
James W. MacDonald
65k • written 7.1 years ago by
carine.genet
• 0
5
votes
7
replies
2.1k
views
GEO series matrix empty
GEOquery
GEO
2.2 years ago • updated 2.1 years ago
gs.123
▴ 20
0
votes
7
replies
341
views
Internet connection for Bioconductor packages in Rstudio in Iran...
No_internet_connection_Packages
Proxy
Bioconductor
GEOquery
Internet_connection_problem
23 days ago • updated 21 days ago
needNGS
• 0
0
votes
7
replies
2.4k
views
Getting annotation into eset
limma
GEOquery
limma
GEOquery
updated 13.5 years ago by
Sean Davis
21k • written 13.5 years ago by
Timothy Wu
▴ 120
2
votes
6
replies
9.5k
views
GEOquery: how to extract experimental data? (confused)
PROcess
GEOquery
PROcess
GEOquery
updated 12.7 years ago by
Dai, Hongying,
▴ 60 • written 12.7 years ago by
J.delasHeras@ed.ac.uk
★ 1.9k
0
votes
6
replies
1.2k
views
installation error of a bioconductor package in my workspace
GEOquery
GEOquery
updated 12.0 years ago by
carol white
▴ 680 • written 12.0 years ago by
Dan Tenenbaum
★ 8.2k
0
votes
6
replies
2.9k
views
processing Illumina HT12v4.0 expression data from GEO
Normalization
affy
PROcess
GEOquery
frma
Normalization
affy
PROcess
GEOquery
frma
updated 9.8 years ago by
Sean Davis
21k • written 9.8 years ago by
Abhishek Pratap
▴ 190
0
votes
6
replies
1.9k
views
GEOquery and GSE error
GEOquery
GEOquery
updated 12.6 years ago by
Sean Davis
21k • written 12.6 years ago by
Voke AO
▴ 760
0
votes
6
replies
1.9k
views
GEOquery and parsing SOFT files
GEOquery
GEOquery
updated 14.9 years ago by
Wolfgang Huber
★ 13k • written 14.9 years ago by
Wacek Kusnierczyk
▴ 180
0
votes
6
replies
1.7k
views
Puma question
cdf
GEOquery
puma
cdf
GEOquery
puma
13.5 years ago
Manca Marco PATH
▴ 340
3
votes
6
replies
2.9k
views
GEOquery: HTTP error 403
GEOquery
GEO
HTTP error 403
5.0 years ago
andy_shaps
▴ 10
0
votes
5
replies
1.5k
views
installation error of a bioconductor package in my workspace
GEOquery
GEOquery
12.0 years ago
carol white
▴ 680
0
votes
5
replies
2.0k
views
downloading different kinds of microarray data
Sequencing
Microarray
Genetics
Annotation
gpls
convert
GEOquery
GEOmetadb
Sequencing
gpls
updated 13.7 years ago by
Alex Levitchi
▴ 30 • written 13.7 years ago by
Sean Davis
21k
7
votes
5
replies
6.1k
views
Tutorial:
Accessing Public Genomic Data from Bioconductor
geoquery
geometadb
sradb
Tutorial
written 8.9 years ago by
Sean Davis
21k
2
votes
5
replies
1.5k
views
Error with GEOquery
GEOquery
GEOquery
updated 18.0 years ago by
Peter
▴ 170 • written 18.0 years ago by
Sharon Anbu
▴ 480
3
votes
5
replies
4.9k
views
Tutorial:
Patch for GEOquery package error: getGEO Error in download.file, cannot open destfile
R
GEO
geoquery
geoquery error message
Tutorial
6.3 years ago
martinguerrerog89
▴ 20
3
votes
5
replies
2.5k
views
getGEO function doesn't download the expression data
geoquery
updated 5.8 years ago by
Axel Klenk
★ 1.0k • written 5.8 years ago by
fwere
▴ 10
6
votes
5
replies
3.6k
views
Processing two-colour array data from GEO using limma when no raw data are available
limma
geoquery
updated 8.2 years ago by
Gordon Smyth
50k • written 8.2 years ago by
Jason
▴ 20
6
votes
5
replies
1.2k
views
a problem of package ""
GEO
GEOquery
updated 2.9 years ago by
Hervé Pagès
16k • written 2.9 years ago by
sheldon19931016
▴ 20
0
votes
5
replies
3.5k
views
assayData: 0 features
geoquery
updated 3.2 years ago by
H. Z. Amini
▴ 10 • written 8.6 years ago by
Ed Siefker
▴ 230
0
votes
5
replies
1.9k
views
XML package - 500 internal server error
GEOquery
ArrayExpress
GEOquery
ArrayExpress
updated 11.0 years ago by
Sean Davis
21k • written 11.0 years ago by
boczniak767
▴ 720
0
votes
5
replies
2.0k
views
Install a custom CDF file
makecdf
RMA
annotation
biobase
GEOquery
updated 4.8 years ago by
James W. MacDonald
65k • written 4.8 years ago by
Seymoo
• 0
0
votes
5
replies
1.3k
views
GEOquery and Sample Subsets
GEOquery
GEOquery
updated 10.9 years ago by
Sean Davis
21k • written 10.9 years ago by
Thomas Hampton
▴ 750
5
votes
5
replies
1.2k
views
Annotation issue while analyzing processed Affymetrix Human Exon 1.0 ST Arrays from Geoquery
affycoretools
huex10sttranscriptcluster.db
affymetrix
Geoquery
updated 4.1 years ago by
James W. MacDonald
65k • written 4.1 years ago by
svlachavas
▴ 830
0
votes
5
replies
1.5k
views
getGEO error
GEOquery
GEOquery
updated 11.2 years ago by
Sean Davis
21k • written 11.2 years ago by
Alyaa Mahmoud
▴ 440
1
vote
5
replies
1.1k
views
Can't read in CEL files
GEO
GEOquery
22 months ago
OE
• 0
0
votes
4
replies
2.7k
views
GEOquery loading error
hgu133plus2
GEOquery
BiocInstaller
hgu133plus2
GEOquery
BiocInstaller
updated 11.9 years ago by
Dan Tenenbaum
★ 8.2k • written 11.9 years ago by
Guest User
★ 13k
2
votes
4
replies
1.5k
views
GEOquery: Missing featureNames after creating expression set from series matrix file
geoquery
updated 8.9 years ago by
James W. MacDonald
65k • written 8.9 years ago by
knaxerova
▴ 10
3
votes
4
replies
1.3k
views
getGEO Error: Duplicate identifiers for rows
geoquery
getgeo
updated 6.2 years ago by
Sean Davis
21k • written 6.2 years ago by
umahajan
▴ 10
0
votes
4
replies
1.3k
views
Agi4x44PreProcess
convert
GEOquery
Agi4x44PreProcess
convert
GEOquery
Agi4x44PreProcess
updated 14.4 years ago by
Neel Aluru
▴ 460 • written 14.4 years ago by
Francois Pepin
★ 1.3k
0
votes
4
replies
2.0k
views
GEO and Limma
limma
GEOquery
limma
GEOquery
12.6 years ago
Voke AO
▴ 760
1
vote
4
replies
1.9k
views
Need help loading gene expression data into R using either ArrayExpress or GEOquery R packages
arrayexpress
geoquery
geneexpression
updated 6.0 years ago by
Sean Davis
21k • written 6.0 years ago by
arbet003
▴ 10
0
votes
4
replies
1.4k
views
error reading GSE file
GEOquery
GEOquery
updated 9.3 years ago by
acd13
• 0 • written 12.8 years ago by
Reema Singh
▴ 570
0
votes
4
replies
1.0k
views
stuck in biocLite("GEOquery")
GEOquery
GEOquery
updated 13.1 years ago by
Dan Tenenbaum
★ 8.2k • written 13.1 years ago by
Jack Luo
▴ 440
5
votes
4
replies
3.8k
views
GEOquery Fails to Download Series Matrix File
geoquery
ncbi geo
geo data
7.4 years ago
fongchunchan
▴ 30
0
votes
4
replies
2.0k
views
Meta data for gene from GEO
GEOquery
GEOmetadb
GEOquery
GEOmetadb
updated 10.4 years ago by
Sean Davis
21k • written 10.4 years ago by
Guest User
★ 13k
0
votes
4
replies
4.3k
views
GEOquery
convert
GEOquery
convert
GEOquery
updated 14.1 years ago by
Sean Davis
21k • written 14.1 years ago by
Julie Zhu
★ 4.3k
50 results • Page
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Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
by
Seyram M.
• 0
Dear Michael, I tried all three ways (the orIginal, increasing the number of required samples,and subsetting (the countdata and metadata be…
Comment: DESeq2 - dispersion estimation when there is none
by
Michael Love
41k
The red line does assume that shape but the fact the black points show that pattern is discussed in the 2014 paper. > Some caution is warr…
Comment: Error for AnnotationForge makeOrgPackageFromNCBI function
by
James W. MacDonald
65k
I don't really follow what you are saying. All you have to do is delete the NCBI.sqlite db and *re-run the script exactly as you did above.…
Comment: Methylation Analysis experiment design using Limma
by
hortense96
• 0
Thank you very much for your reply and your suggestion, as I'm having a bit of trouble finding information on how to manage this part of th…
Comment: Limma design with continuous and categorical covariates
by
hortense96
• 0
Hello, I'm trying to do a differential methylation analysis with the Limma package and was wondering if you had any suggestions on how to …
Votes
Comment: DESeq2 - dispersion estimation when there is none
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
Answer: OrgDb for maize
Answer: DESeq2 - dispersion estimation when there is none
Comment: Cannabis and KEGGgraph
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