Showing : geoquery • reset
0
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0
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1.3k
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Query based on PMIDs
SRAdb geoquery
7.1 years ago Deepak Tanwar ▴ 10
5
votes
12
replies
3.7k
views
Using eset while parsing GSE file located in a path
GEO geoquery
updated 7.4 years ago by 21k • written 7.4 years ago by ▴ 20
2
votes
3
replies
2.4k
views
Filtering the probe set ids from GSE file
geoquery GSE
7.4 years ago mahm ▴ 20
3
votes
11
replies
3.8k
views
Filtering Gene Symbols and Sample Description from GSE files of GEO
gene expression geoquery GSE bioconductor microarray
updated 7.4 years ago by 21k • written 7.4 years ago by ▴ 20
3
votes
2
replies
2.4k
views
Installing GEOQuery failed with conda
geoquery anaconda libxml2
updated 7.4 years ago by 25k • written 7.4 years ago by ▴ 10
0
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1
reply
1.7k
views
question about getGEO function
geoquery
7.4 years ago maryam.sabet • 0
0
votes
1
reply
1.1k
views
GEOquery install problem
geoquery
7.5 years ago 261092095 ▴ 10
3
votes
5
replies
3.6k
views
getGEO function doesn't download the expression data
geoquery
updated 7.5 years ago by ★ 1.1k • written 7.5 years ago by ▴ 10
0
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4
replies
2.2k
views
GEOquery using keywords in R
GEO geoquery geometadb
updated 7.6 years ago by 21k • written 7.6 years ago by ▴ 10
1
vote
4
replies
3.1k
views
Need help loading gene expression data into R using either ArrayExpress or GEOquery R packages
arrayexpress geoquery geneexpression
updated 7.7 years ago by 21k • written 7.7 years ago by ▴ 10
1
vote
2
replies
1.5k
views
Error when Creating Expression Set from Geo Set
geoquery
7.8 years ago dmm204 • 0
2
votes
2
replies
1.6k
views
getGEO from GEOquery doesn't return probesets
geoquery getgeo probeset
updated 7.8 years ago by 68k • written 7.8 years ago by • 0
3
votes
2
replies
5.1k
views
getGEO error when trying to download a series matrix file
GEOquery getGEO
7.8 years ago rubi ▴ 110
2
votes
3
replies
2.1k
views
GEO2R Gene Expression
geoquery
updated 7.8 years ago by 21k • written 7.8 years ago by ▴ 10
1
vote
1
reply
1.9k
views
GEOquery: Diagnosing SOFT file error
geoquery geo data geo soft files
updated 7.8 years ago by 21k • written 7.8 years ago by ▴ 10
3
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4
replies
1.8k
views
getGEO Error: Duplicate identifiers for rows
geoquery getgeo
updated 7.9 years ago by 21k • written 7.9 years ago by ▴ 10
1
vote
7
replies
2.3k
views
model.matrix from GDS data
model.matrix lmFit eBayes GEOquery limma
7.9 years ago darthratus • 0
3
votes
11
replies
5.7k
views
GEOquery http:// url error
geoquery error getgeo microarray geo
updated 8.0 years ago by 21k • written 8.7 years ago by • 0
0
votes
1
reply
2.1k
views
GEOquery getGEO 404
geoquery geoquery error message
updated 8.0 years ago by 21k • written 8.0 years ago by ▴ 20
3
votes
5
replies
6.8k
views
Tutorial: Patch for GEOquery package error: getGEO Error in download.file, cannot open destfile
R GEO geoquery geoquery error message Tutorial
8.0 years ago martinguerrerog89 ▴ 20
10
votes
7
replies
3.4k
views
SummarizedExperiment object from GEOquery obtained GSE
geoquery summarizedexperiment GEO matrix
updated 8.0 years ago by 21k • written 8.0 years ago by ▴ 60
1
vote
3
replies
2.1k
views
Boxplot and Identification of DEG
limma biobase geoquery
updated 8.1 years ago by ★ 29k • written 8.1 years ago by ▴ 30
3
votes
3
replies
2.1k
views
How to construct an up-to-date and annotation-rich RangeSummarizedExperiment object around old microarray data?
geoquery summarizedexperiment rangedsummarizedexperiment
updated 8.2 years ago by 21k • written 8.2 years ago by ▴ 100
1
vote
3
replies
3.1k
views
Reading Illumina HT12 V4.0 Data from GEO into Lumi
lumi geoquery geo illumina human ht-12 v4 gene expression
updated 8.2 years ago by 53k • written 8.2 years ago by • 0
0
votes
1
reply
2.1k
views
GEOquery download error
geoquery error message GEOquery GSE GEO
8.4 years ago Barah ▴ 20
3
votes
3
replies
9.8k
views
Retrieving data from NCBI GEO Problem and RNA-Seq Data Analysis
rnaseq rna-seq limma geoquery edger
updated 8.4 years ago by 21k • written 8.4 years ago by ▴ 20
2
votes
3
replies
2.4k
views
GEOquery problem in calling the function in Rstudio
R software error biobase geoquery
updated 8.5 years ago by 68k • written 8.5 years ago by • 0
0
votes
0
replies
1.1k
views
MILES dataset download
software error geoquery
updated 8.5 years ago by 4.2k • written 8.5 years ago by • 0
0
votes
1
reply
929
views
Finding all samples with specific gene
geo2r lima geoquery
updated 8.6 years ago by 68k • written 8.6 years ago by • 0
0
votes
2
replies
2.3k
views
Error in GEOquery
geoquery getgeo R
updated 8.7 years ago by 68k • written 8.7 years ago by • 0
2
votes
2
replies
2.2k
views
Problem with GEOquery R package in Windows when trying to download specific GEO processed data
geoquery affymetrix microarrays windows8 getGEO
updated 8.8 years ago by 21k • written 8.8 years ago by ▴ 840
2
votes
7
replies
2.0k
views
Not able to reproduce limma results from affy chip with or without CEL file from 2 GSE datasets
limma GEOquery affy
updated 8.8 years ago by 68k • written 8.8 years ago by • 0
1
vote
2
replies
1.5k
views
How to compare 10 GSMxxxxx from one GSE to 10 GSM from another GSE with GEOQuery
geoquery
updated 8.8 years ago by 68k • written 8.8 years ago by • 0
1
vote
1
reply
1.3k
views
NA's returned for GEO GPL3921 platform probsets
geoquery
9.4 years ago • updated 8.9 years ago Zach Roe ▴ 10
1
vote
2
replies
1.4k
views
Error in "getGSEDataTables" in GSEquery package
geoquery
updated 9.0 years ago by 21k • written 9.8 years ago by ▴ 10
0
votes
0
replies
1.7k
views
getGEO: not all columns named in 'colClasses' exist and invalid 'nlines' argument
GEOquery
9.1 years ago Shicheng Guo • 0
2
votes
2
replies
3.1k
views
GEOquery error in downloading SOFT files
geoquery getgeo GEO
9.1 years ago hzc363 ▴ 20
6
votes
4
replies
6.4k
views
GEOquery Fails to Download Series Matrix File
geoquery ncbi geo geo data
9.2 years ago fongchunchan ▴ 30
1
vote
3
replies
2.8k
views
Log-Transform Values of eSet
expressionset bioconductor limma geoquery
updated 9.2 years ago by ▴ 840 • written 9.2 years ago by • 0
1
vote
1
reply
2.8k
views
GEO error : Warning message: In read.table(file = file, header = header, sep = sep, quote = quote, : not all columns named in 'colClasses' exist
geoquery geoquery error message
updated 9.4 years ago by 21k • written 9.4 years ago by ▴ 10
0
votes
0
replies
1.2k
views
GEOQuery - Encoding UTF-8
geoquery UTF
9.4 years ago Adrian Johnson ▴ 330
0
votes
1
reply
1.1k
views
Iteration through a list failing
geoquery
updated 9.6 years ago by 68k • written 9.6 years ago by • 0
2
votes
1
reply
2.3k
views
GEOquery::getGEO warning: not all columns named in 'colClasses' exist
GEOquery
updated 9.6 years ago by 21k • written 9.6 years ago by ▴ 110
4
votes
3
replies
3.5k
views
Modifying eset@assayData$exprs : Error : cannot change value of locked binding for 'exprs'
GEOquery
updated 9.7 years ago by ★ 13k • written 9.7 years ago by ▴ 40
6
votes
1
reply
2.1k
views
select negative control probes with GEOquery
GEOquery MBCB limma
9.9 years ago goldberg.jm ▴ 10
6
votes
5
replies
4.5k
views
Processing two-colour array data from GEO using limma when no raw data are available
limma geoquery
updated 9.9 years ago by 53k • written 9.9 years ago by ▴ 20
2
votes
4
replies
2.2k
views
GEOquery: Shifted data columns in phenotype data
geoquery getgeo
10.0 years ago rfb • 0
2
votes
2
replies
2.2k
views
getGEO error
getgeo geoquery
updated 10.0 years ago by 53k • written 10.0 years ago by ▴ 10
1
vote
1
reply
2.1k
views
Error of GDS2eSet() function
convert geoquery error GDS2eSet
updated 10.0 years ago by 68k • written 10.0 years ago by • 0
0
votes
1
reply
1.7k
views
Getting data from GEO
affymetrix microarrays GEO geoquery
updated 10.1 years ago by 68k • written 10.1 years ago by • 0
242 results • Page 2 of 5
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Comment: Guitar R package requires update due to dependency GenomicFeatures by ferran.llobet.cabau ▴ 10
Thank you @seandavi for your feedback. I followed your recommendations and generated a [pull request][1] including the fix for this issue…
Comment: Ensembl plants at annotationHub? by Guido Hooiveld ★ 4.1k
Hope you don't mind I am not Johannes... ;-) Note that you nowadays can generate these yourselves using the `docker` image Johannes made av…
Comment: How does contrasts.fit do in limma to extract comparisons with a model having in by jtsy6383 • 0
Thanks for the reminder about DiffVar (for that project I ended up using GAMLSS in the end and haven't touched DiffVar since) and the alter…
Comment: Ensembl plants at annotationHub? by jwp48 • 0
Dear Johannes, Would it be possible to generate a EnsDb for the newest Medicago V5 genome release? Medicago truncatula A17 r5.0 This woul…
Answer: please provide a BibTeX citation for "Advanced Single-Cell Analysis with Biocond by Ludwig Geistlinger ▴ 80
When referring to the OSCA book including individual sub-books please cite the OSCA paper: Amezquita, R.A., Lun, A.T.L., Becht, E. et a…
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Comment: Guitar R package requires update due to dependency GenomicFeatures
A: how to control age and gender effect in expression data using DESeq2
A: how to control age and gender effect in expression data using DESeq2
how to control age and gender effect in expression data using DESeq2
Answer: please provide a BibTeX citation for "Advanced Single-Cell Analysis with Biocond
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