Showing : geo • reset
5
votes
7
replies
391
views
GEO series matrix empty
GEOquery GEO
12 weeks ago • updated 11 weeks ago gs.123 ▴ 20
1
vote
2
replies
443
views
GEO RNASeq data query
GEOquery RNASeq GEO
updated 5 months ago by 21k • written 5 months ago by ▴ 10
6
votes
7
replies
666
views
GEOquery reading error on Windows.
GEOquery GEO Gene
updated 6 months ago by 59k • written 6 months ago by ▴ 50
1
vote
3
replies
346
views
Microarray - Illumina Metadata
limma GEO MicroarrayData affy
updated 7 months ago by 59k • written 7 months ago by • 0
6
votes
5
replies
441
views
a problem of package ""
GEO GEOquery
updated 11 months ago by 15k • written 11 months ago by ▴ 20
2
votes
3
replies
295
views
Problem about Geoquery
GEO GEOquery
11 months ago sheldon19931016 ▴ 20
4
votes
2
replies
361
views
TargetsFile. Where it is?
Limma ArrayExpress GEO
updated 13 months ago by 59k • written 13 months ago by • 0
3
votes
4
replies
543
views
GEO + RNA-seq. Total Newbie.
RNASeqData RNASeq GEO RNASeqR HELP
13 months ago hgalmoore • 0
2
votes
1
reply
607
views
Error in (function (classes, fdef, mtable) : unable to find an inherited method for function ‘rma’ for signature ‘"ExpressionSet"’
GEO oligo
updated 13 months ago by 59k • written 13 months ago by • 0
5
votes
5
replies
723
views
analyzing RNA-Seq transcriptomic data (GEO accession: GSE96058)
GEO RNASeqR Transcriptomics
updated 14 months ago by 59k • written 14 months ago by • 0
0
votes
0
replies
262
views
Identify significantly different DNA methylation probes in tumor and normal samples GBM ELMER R package
ELMER TCGA GEO
20 months ago andrade4beatriz • 0
2
votes
2
replies
584
views
How to Analyse Datasets from GEO
geo rnaseq deseq2 tpm
updated 2.0 years ago by 3.5k • written 2.0 years ago by ▴ 10
1
vote
1
reply
313
views
Table expression data from GEO file
GEO expression GEOquery
updated 2.1 years ago by ★ 2.8k • written 2.1 years ago by • 0
0
votes
1
reply
301
views
get Gene ID from GEO microarray dataset with fData
GEO
updated 2.2 years ago by 59k • written 2.2 years ago by • 0
1
vote
4
replies
342
views
How to obtain the two gene expression datasets from a dual channel GEO dataset?
dual-channel GEO gene-expression
updated 2.3 years ago by 45k • written 2.3 years ago by • 0
4
votes
5
replies
522
views
All genes display positive fold change in topTable results after limma
limma microarray foldchange DEG GEO
updated 2.3 years ago by 45k • written 2.3 years ago by ▴ 30
0
votes
2
replies
345
views
Annotation Using GEOquery
Annotation GEO TXT
updated 2.5 years ago by 21k • written 2.5 years ago by • 0
0
votes
6
replies
587
views
Opening Illumina HT12 V3.0 Data from GEO
limma normalization GEO
2.6 years ago FL512 • 0
3
votes
2
replies
537
views
GEO Download - "The query to BioMart webservice returned an invalid result..."
biomart geo software error ensembl
updated 2.9 years ago by ★ 5.5k • written 2.9 years ago by ▴ 10
0
votes
0
replies
415
views
GEOquery: series matrix not parsing correctly
GEOquery GEO
updated 3.0 years ago by 59k • written 3.0 years ago by ▴ 10
3
votes
6
replies
1.6k
views
GEOquery: HTTP error 403
GEOquery GEO HTTP error 403
3.1 years ago andy_shaps ▴ 10
5
votes
12
replies
1.4k
views
Using eset while parsing GSE file located in a path
GEO geoquery
updated 3.7 years ago by 21k • written 3.7 years ago by ▴ 20
1
vote
3
replies
541
views
Filtering the expression values of a gene from GEO
GEO microarray
updated 3.8 years ago by 59k • written 3.8 years ago by ▴ 20
2
votes
6
replies
729
views
error reading GSE using getGEO()
r geo getgeo
3.8 years ago jaleh.amo • 0
3
votes
2
replies
631
views
Unable to connect to 'watson.nci.nih.gov' on port 80 using GEOmetadb R library
geometadb GEO R bioconductor
updated 3.9 years ago by 21k • written 3.9 years ago by ▴ 20
1
vote
2
replies
1.1k
views
Targets.txt file missing in agilent GEO data. How do I preprocess raw Agilent file of GEO data or how to makethe expression matrix step by step from …
limma microarray agilent microarrays GEO
updated 3.9 years ago by 59k • written 3.9 years ago by • 0
0
votes
4
replies
720
views
GEOquery using keywords in R
GEO geoquery geometadb
updated 4.0 years ago by 21k • written 4.0 years ago by ▴ 10
0
votes
0
replies
594
views
Preprocessing and Normalisation of GEO Meth/Unmeth signals
GEO minfi
4.0 years ago daniel.green • 0
1
vote
1
reply
648
views
GEOquery: Diagnosing SOFT file error
geoquery geo data geo soft files
updated 4.2 years ago by 21k • written 4.2 years ago by ▴ 10
3
votes
11
replies
2.3k
views
GEOquery http:// url error
geoquery error getgeo microarray geo
updated 4.3 years ago by 21k • written 5.1 years ago by • 0
3
votes
5
replies
2.8k
views
Tutorial: Patch for GEOquery package error: getGEO Error in download.file, cannot open destfile
R GEO geoquery geoquery error message Tutorial
4.3 years ago martinguerrerog89 ▴ 20
10
votes
7
replies
1.4k
views
SummarizedExperiment object from GEOquery obtained GSE
geoquery summarizedexperiment GEO matrix
updated 4.4 years ago by 21k • written 4.4 years ago by ▴ 60
1
vote
3
replies
1.5k
views
Reading Illumina HT12 V4.0 Data from GEO into Lumi
lumi geoquery geo illumina human ht-12 v4 gene expression
updated 4.6 years ago by 45k • written 4.6 years ago by • 0
0
votes
1
reply
902
views
GEOquery download error
geoquery error message GEOquery GSE GEO
4.7 years ago Barah ▴ 20
1
vote
3
replies
818
views
Getting gene annotation for a GEO dataset
geo
4.9 years ago yuvallb • 0
2
votes
2
replies
1.1k
views
GEOquery error in downloading SOFT files
geoquery getgeo GEO
5.5 years ago hzc363 ▴ 20
0
votes
1
reply
1.4k
views
Question about neqc and GEO illumina files
neqc illumina geo limma
updated 5.9 years ago by 45k • written 5.9 years ago by ▴ 30
2
votes
4
replies
1.0k
views
read bead-level data directly by lumi
bead-level GEO lumi
updated 6.2 years ago by ★ 5.5k • written 6.2 years ago by • 0
1
vote
2
replies
947
views
readIllumina couln't read bead-level txt file from GEO raw data
beadarray bead-level GEO lumi
updated 6.2 years ago by ★ 5.5k • written 6.2 years ago by • 0
0
votes
1
reply
734
views
data handling from GSE22216 to exprSet object
GEO
updated 6.4 years ago by ★ 5.5k • written 6.4 years ago by ▴ 10
0
votes
5
replies
1.2k
views
collect an expression dataset
limma CEL GEO affydata expresiondataset
updated 6.5 years ago by ★ 2.8k • written 6.5 years ago by • 0
0
votes
1
reply
764
views
Getting data from GEO
affymetrix microarrays GEO geoquery
updated 6.5 years ago by 59k • written 6.5 years ago by • 0
5
votes
7
replies
1.3k
views
what conditions affect my gene (with limma?)
limma geo experimental design
updated 6.7 years ago by 45k • written 6.7 years ago by • 0
43 results • Page 1 of 1
Recent ...
Replies
Comment: Methods for removing unexpressed probes of Affymetrix Human Genome U219 Array by James W. MacDonald 59k
We have progressed past the point where I show you how to do things using Bioconductor packages, and into the realm where I start telling y…
Comment: Methods for removing unexpressed probes of Affymetrix Human Genome U219 Array by Yang Shi • 0
Thanks sir! As your mentioned here, 12-15 means cutoff value about 4? Could I select the reflection point as the "point" that starts to ha…
Comment: Methods for removing unexpressed probes of Affymetrix Human Genome U219 Array by James W. MacDonald 59k
It's a non-scientific selection. The Nonspecific probes are meant to be sequences that are not found in nature, so any binding is due to cr…
Comment: Methods for removing unexpressed probes of Affymetrix Human Genome U219 Array by Yang Shi • 0
Thanks for your excellent reply sir! But there are still some points confused me. (1).dbGetQuery get 93 kinds of probes. Would be okay for …
Comment: Print EnhancedVolcano Plot as jpeg or similar in R Notebook by Kevin Blighe 3.5k
Great! problem solved, then?
Votes
Answer: Methods for removing unexpressed probes of Affymetrix Human Genome U219 Array
Answer: Methods for removing unexpressed probes of Affymetrix Human Genome U219 Array
Comment: Quantile Normalization after rma or not?
Comment: Print EnhancedVolcano Plot as jpeg or similar in R Notebook
Comment: How to best visualize multi-level transcriptomics experiment data?
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