Showing : Geoquery • reset
1
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70
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unable to find an inherited method for function ‘Table’ for signature ‘"GSE"
GEOquery
updated 21 days ago by 21k • written 21 days ago by ▴ 10
0
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1
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117
views
GEOquery
GEOquery
updated 9 weeks ago by ▴ 150 • written 9 weeks ago by • 0
6
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5
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184
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a problem of package ""
GEO GEOquery
updated 10 weeks ago by 15k • written 10 weeks ago by ▴ 20
2
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3
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121
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Problem about Geoquery
GEO GEOquery
10 weeks ago sheldon19931016 ▴ 20
7
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3
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3.2k
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Tutorial: Accessing Public Genomic Data from Bioconductor
geoquery geometadb sradb Tutorial
6.2 years ago • updated 21 days ago Sean Davis 21k
0
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5
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1.4k
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assayData: 0 features
geoquery
updated 5 months ago by • 0 • written 5.9 years ago by ▴ 230
3
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4
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303
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when using getGEO() from GEOquery, an error happened : a file does not exist
GEOquery projectR
updated 6 months ago by 21k • written 6 months ago by ▴ 20
3
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1
reply
181
views
Limma: extend reading raw Illumina files, with Gene Omnbus Expression formats
beadarray GSE22247 limma GEOquery IlluminaChip
updated 7 months ago by 43k • written 7 months ago by • 0
0
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2
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322
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Error during installation of GEOquery package (R 4.0.3, Bioconduct 3.11)
software error GEOquery
updated 9 months ago by 1.5k • written 9 months ago by • 0
6
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3
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267
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GEOquery: preprocessing log of imported data
GEOquery microarray lumi affy limma
updated 14 months ago by 21k • written 14 months ago by ▴ 40
1
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1
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154
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Table expression data from GEO file
GEO expression GEOquery
updated 15 months ago by ★ 2.7k • written 15 months ago by • 0
4
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5
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253
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Annotation issue while analyzing processed Affymetrix Human Exon 1.0 ST Arrays from Geoquery
affycoretools huex10sttranscriptcluster.db affymetrix Geoquery
updated 16 months ago by 57k • written 16 months ago by ▴ 780
0
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1
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218
views
I have installed bioconductor, R still asks me to install it
bioconductor biocLite GEOquery package
updated 18 months ago by 13k • written 18 months ago by • 0
0
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3
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214
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GEOquery and Feature data
GEOquery featureNames
updated 21 months ago by 21k • written 21 months ago by • 0
0
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3
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478
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When applying rma to featureset get error: 'package' must be of length 1
oligo biobase GEOquery
updated 21 months ago by 57k • written 21 months ago by • 0
2
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2
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556
views
Error object and replacement value dimnames differ, when changing column names of assayData of ExpressionSet (although dimension is same)
oligo GEOquery ExpressionSet
updated 21 months ago by 57k • written 21 months ago by • 0
2
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1
reply
250
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Downloading a private GEO with GEOquery
GEOquery
updated 22 months ago by 21k • written 22 months ago by ▴ 650
0
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5
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759
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Install a custom CDF file
makecdf RMA annotation biobase GEOquery
updated 2.1 years ago by 57k • written 2.1 years ago by • 0
0
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0
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301
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GEOquery: series matrix not parsing correctly
GEOquery GEO
updated 2.2 years ago by 57k • written 2.2 years ago by ▴ 10
3
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6
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1.0k
views
GEOquery: HTTP error 403
GEOquery GEO HTTP error 403
2.3 years ago andy_shaps ▴ 10
1
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2
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405
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How do I creat an expressionset if there is no GDS listed on the GEO database?
limma microarray GEOquery
updated 2.3 years ago by 57k • written 2.3 years ago by • 0
3
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4
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666
views
GEOquery:Get error sampleNames
geoquery
updated 2.6 years ago by 0 • written 2.7 years ago by ▴ 10
2
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2
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1.2k
views
geGeo error - Error in .subset2(x, i) : subscript out of bounds
geoquery
updated 2.6 years ago by 57k • written 2.6 years ago by ▴ 10
0
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2
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452
views
GEOQuery bug, NCBI or package?
geoquery ncbi geo biobase
2.7 years ago cschot3 • 0
0
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0
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357
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Query based on PMIDs
SRAdb geoquery
2.7 years ago Deepak Tanwar ▴ 10
5
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12
replies
851
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Using eset while parsing GSE file located in a path
GEO geoquery
updated 2.9 years ago by 21k • written 2.9 years ago by ▴ 20
2
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3
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553
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Filtering the probe set ids from GSE file
geoquery GSE
2.9 years ago mahm ▴ 20
3
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11
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880
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Filtering Gene Symbols and Sample Description from GSE files of GEO
gene expression geoquery GSE bioconductor microarray
updated 2.9 years ago by 21k • written 2.9 years ago by ▴ 20
3
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2
replies
624
views
Installing GEOQuery failed with conda
geoquery anaconda libxml2
updated 3.0 years ago by 25k • written 3.0 years ago by ▴ 10
0
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1
reply
593
views
question about getGEO function
geoquery
3.0 years ago maryam.sabet • 0
0
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1
reply
382
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GEOquery install problem
geoquery
3.0 years ago 261092095 ▴ 10
3
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5
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942
views
getGEO function doesn't download the expression data
geoquery
updated 3.1 years ago by ▴ 980 • written 3.1 years ago by ▴ 10
0
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4
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515
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GEOquery using keywords in R
GEO geoquery geometadb
updated 3.2 years ago by 21k • written 3.2 years ago by ▴ 10
1
vote
4
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744
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Need help loading gene expression data into R using either ArrayExpress or GEOquery R packages
arrayexpress geoquery geneexpression
updated 3.3 years ago by 21k • written 3.3 years ago by ▴ 10
1
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2
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565
views
Error when Creating Expression Set from Geo Set
geoquery
3.3 years ago dmm204 • 0
2
votes
2
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579
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getGEO from GEOquery doesn't return probesets
geoquery getgeo probeset
updated 3.4 years ago by 57k • written 3.4 years ago by • 0
3
votes
2
replies
1.4k
views
getGEO error when trying to download a series matrix file
GEOquery getGEO
3.4 years ago rubi ▴ 90
2
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3
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476
views
GEO2R Gene Expression
geoquery
updated 3.4 years ago by 21k • written 3.4 years ago by ▴ 10
1
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1
reply
473
views
GEOquery: Diagnosing SOFT file error
geoquery geo data geo soft files
updated 3.4 years ago by 21k • written 3.4 years ago by ▴ 10
3
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4
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670
views
getGEO Error: Duplicate identifiers for rows
geoquery getgeo
updated 3.4 years ago by 21k • written 3.4 years ago by ▴ 10
1
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7
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647
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model.matrix from GDS data
model.matrix lmFit eBayes GEOquery limma
3.5 years ago darthratus • 0
3
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11
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1.9k
views
GEOquery http:// url error
geoquery error getgeo microarray geo
updated 3.5 years ago by 21k • written 4.3 years ago by • 0
0
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1
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906
views
GEOquery getGEO 404
geoquery geoquery error message
updated 3.5 years ago by 21k • written 3.5 years ago by ▴ 20
3
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5
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2.0k
views
Tutorial: Patch for GEOquery package error: getGEO Error in download.file, cannot open destfile
R GEO geoquery geoquery error message Tutorial
3.5 years ago martinguerrerog89 ▴ 20
10
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7
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1.1k
views
SummarizedExperiment object from GEOquery obtained GSE
geoquery summarizedexperiment GEO matrix
updated 3.6 years ago by 21k • written 3.6 years ago by ▴ 60
1
vote
3
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637
views
Boxplot and Identification of DEG
limma biobase geoquery
updated 3.7 years ago by ★ 27k • written 3.7 years ago by ▴ 20
3
votes
3
replies
637
views
How to construct an up-to-date and annotation-rich RangeSummarizedExperiment object around old microarray data?
geoquery summarizedexperiment rangedsummarizedexperiment
updated 3.7 years ago by 21k • written 3.7 years ago by ▴ 100
1
vote
3
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1.2k
views
Reading Illumina HT12 V4.0 Data from GEO into Lumi
lumi geoquery geo illumina human ht-12 v4 gene expression
updated 3.8 years ago by 43k • written 3.8 years ago by • 0
0
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1
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717
views
GEOquery download error
geoquery error message GEOquery GSE GEO
3.9 years ago Barah ▴ 20
3
votes
3
replies
2.2k
views
Retrieving data from NCBI GEO Problem and RNA-Seq Data Analysis
rnaseq rna-seq limma geoquery edger
updated 4.0 years ago by 21k • written 4.0 years ago by ▴ 20
50 results • Page 1 of 1
Recent ...
Replies
Comment: Paired samples analysis by Hanan • 0
Thank you BioStars referred me to this [tutorial][1] . [1]: http://bioconductor.org/packages/devel/bioc/vignettes/DESeq2/inst/doc/DES…
Comment: cant read celfiles using oligo package by scipio04 • 0
i want to get a matrix in order to do population genomic analysis after it's about SNP the answer i received was about the right packa…
Comment: Bootstrap value using ape package and including it in phylogenetic tree by Kevin Blighe 3.2k
Hi, can you please elaborate further on what is the problem by showing a screenshot? Can you please also check the contents of your objects…
Answer: extracting the KEGG pathway for a set of genes by Kevin Blighe 3.2k
Hi Bogdan, I use *KEGGprofile*, but there are other options. The main function is `find_enriched_pathway()`, and it by default accepts…
Answer: cant read celfiles using oligo package by Kevin Blighe 3.2k
Hi, It seems that you already received an answer here: https://support.bioconductor.org/p/9138838/#9138849 What do you want to do wit…
Votes
Answer: Is there anyway to replace seqlevels in a txdb
Comment: Compilation fatal error: iostream.h: No such file or directory when installing R
Answer: tximeta countsFromAbundance for downstream analysis
A: plotPCA - how to add labels to a PCA plot
A: plotPCA - how to add labels to a PCA plot
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