Showing : GEO • reset
4
votes
17
replies
5.2k
views
How to load scRNA-seq data from GEO
SingleCellExperiment GEO
updated 7 weeks ago by ★ 4.9k • written 11 weeks ago by ▴ 10
0
votes
1
reply
455
views
combining raw counts and estimated counts
RNASeqData GEO TCGAbiolinks
updated 6 months ago by • 0 • written 7 months ago by • 0
0
votes
3
replies
834
views
Trouble with creating Series RNA-seq normalized counts matrix
GEO rnaseqGene RNA
12 months ago gallantk5 • 0
0
votes
4
replies
1.2k
views
Generating Gene Expression Levels from TSV files on GEO
GEOquery GEO TSV
updated 12 months ago by 21k • written 12 months ago by • 0
0
votes
9
replies
1.2k
views
Research Project - Expanding search funtionality on the GEO database
GEOquery GEO
13 months ago gallantk5 • 0
1
vote
10
replies
1.6k
views
Obtaining pheno data from CEL files
GEO affy
15 months ago Kurtis • 0
0
votes
1
reply
891
views
how to solve this error
DESeq2 GEO miRNAData
updated 2.2 years ago by ★ 4.9k • written 2.2 years ago by • 0
1
vote
5
replies
1.8k
views
Can't read in CEL files
GEO GEOquery
3.1 years ago OE • 0
5
votes
7
replies
3.2k
views
GEO series matrix empty
GEOquery GEO
3.4 years ago gs.123 ▴ 20
1
vote
2
replies
3.5k
views
GEO RNASeq data query
GEOquery RNASeq GEO
updated 3.6 years ago by 21k • written 3.7 years ago by ▴ 10
6
votes
7
replies
3.3k
views
GEOquery reading error on Windows.
GEOquery GEO Gene
updated 3.7 years ago by 68k • written 3.7 years ago by ▴ 50
1
vote
3
replies
1.6k
views
Microarray - Illumina Metadata
limma GEO MicroarrayData affy
updated 3.8 years ago by 68k • written 3.8 years ago by • 0
6
votes
5
replies
1.8k
views
a problem of package ""
GEO GEOquery
updated 4.2 years ago by 16k • written 4.2 years ago by ▴ 20
2
votes
3
replies
1.6k
views
Problem about Geoquery
GEO GEOquery
4.2 years ago sheldon19931016 ▴ 20
4
votes
2
replies
1.7k
views
TargetsFile. Where it is?
Limma ArrayExpress GEO
updated 4.3 years ago by 68k • written 4.3 years ago by • 0
3
votes
4
replies
2.1k
views
GEO + RNA-seq. Total Newbie.
RNASeqData RNASeq GEO RNASeqR HELP
4.3 years ago hgalmoore • 0
2
votes
1
reply
3.7k
views
Error in (function (classes, fdef, mtable) : unable to find an inherited method for function ‘rma’ for signature ‘"ExpressionSet"’
GEO oligo
updated 4.3 years ago by 68k • written 4.3 years ago by • 0
5
votes
5
replies
4.4k
views
analyzing RNA-Seq transcriptomic data (GEO accession: GSE96058)
GEO RNASeqR Transcriptomics
updated 4.4 years ago by 68k • written 4.4 years ago by ▴ 10
0
votes
0
replies
1.1k
views
Identify significantly different DNA methylation probes in tumor and normal samples GBM ELMER R package
ELMER TCGA GEO
4.9 years ago andrade4beatriz • 0
2
votes
2
replies
2.6k
views
How to Analyse Datasets from GEO
geo rnaseq deseq2 tpm
updated 5.2 years ago by ★ 4.0k • written 5.2 years ago by ▴ 10
1
vote
1
reply
1.7k
views
Table expression data from GEO file
GEO expression GEOquery
updated 5.2 years ago by ★ 3.4k • written 5.2 years ago by • 0
0
votes
1
reply
1.8k
views
get Gene ID from GEO microarray dataset with fData
GEO
updated 5.4 years ago by 68k • written 5.4 years ago by • 0
1
vote
4
replies
1.7k
views
How to obtain the two gene expression datasets from a dual channel GEO dataset?
dual-channel GEO gene-expression
updated 5.4 years ago by 52k • written 5.4 years ago by • 0
4
votes
5
replies
1.9k
views
All genes display positive fold change in topTable results after limma
limma microarray foldchange DEG GEO
updated 5.5 years ago by 52k • written 5.5 years ago by ▴ 40
0
votes
2
replies
1.3k
views
Annotation Using GEOquery
Annotation GEO TXT
updated 5.7 years ago by 21k • written 5.7 years ago by • 0
0
votes
6
replies
1.8k
views
Opening Illumina HT12 V3.0 Data from GEO
limma normalization GEO
5.8 years ago FL512 • 0
3
votes
2
replies
1.5k
views
GEO Download - "The query to BioMart webservice returned an invalid result..."
biomart geo software error ensembl
updated 6.1 years ago by ★ 6.6k • written 6.1 years ago by ▴ 10
0
votes
0
replies
1.3k
views
GEOquery: series matrix not parsing correctly
GEOquery GEO
updated 6.2 years ago by 68k • written 6.2 years ago by ▴ 10
3
votes
6
replies
4.2k
views
GEOquery: HTTP error 403
GEOquery GEO HTTP error 403
6.2 years ago andy_shaps ▴ 10
5
votes
12
replies
3.4k
views
Using eset while parsing GSE file located in a path
GEO geoquery
updated 6.9 years ago by 21k • written 6.9 years ago by ▴ 20
1
vote
3
replies
1.3k
views
Filtering the expression values of a gene from GEO
GEO microarray
updated 6.9 years ago by 68k • written 7.0 years ago by ▴ 20
2
votes
6
replies
2.3k
views
error reading GSE using getGEO()
r geo getgeo
7.0 years ago jaleh.amo • 0
3
votes
2
replies
1.8k
views
Unable to connect to 'watson.nci.nih.gov' on port 80 using GEOmetadb R library
geometadb GEO R bioconductor
updated 7.0 years ago by 21k • written 7.0 years ago by ▴ 20
1
vote
2
replies
2.1k
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 7.1 years ago by 68k • written 7.1 years ago by • 0
0
votes
4
replies
2.0k
views
GEOquery using keywords in R
GEO geoquery geometadb
updated 7.1 years ago by 21k • written 7.1 years ago by ▴ 10
0
votes
0
replies
1.4k
views
Preprocessing and Normalisation of GEO Meth/Unmeth signals
GEO minfi
7.2 years ago daniel.green • 0
1
vote
1
reply
1.8k
views
GEOquery: Diagnosing SOFT file error
geoquery geo data geo soft files
updated 7.4 years ago by 21k • written 7.4 years ago by ▴ 10
3
votes
11
replies
5.2k
views
GEOquery http:// url error
geoquery error getgeo microarray geo
updated 7.5 years ago by 21k • written 8.3 years ago by • 0
3
votes
5
replies
6.4k
views
Tutorial: Patch for GEOquery package error: getGEO Error in download.file, cannot open destfile
R GEO geoquery geoquery error message Tutorial
7.5 years ago martinguerrerog89 ▴ 20
10
votes
7
replies
3.2k
views
SummarizedExperiment object from GEOquery obtained GSE
geoquery summarizedexperiment GEO matrix
updated 7.6 years ago by 21k • written 7.6 years ago by ▴ 60
1
vote
3
replies
2.9k
views
Reading Illumina HT12 V4.0 Data from GEO into Lumi
lumi geoquery geo illumina human ht-12 v4 gene expression
updated 7.8 years ago by 52k • written 7.8 years ago by • 0
0
votes
1
reply
2.0k
views
GEOquery download error
geoquery error message GEOquery GSE GEO
7.9 years ago Barah ▴ 20
1
vote
3
replies
1.9k
views
Getting gene annotation for a GEO dataset
geo
8.0 years ago yuvallb • 0
2
votes
2
replies
2.9k
views
GEOquery error in downloading SOFT files
geoquery getgeo GEO
8.7 years ago hzc363 ▴ 20
0
votes
1
reply
2.6k
views
Question about neqc and GEO illumina files
neqc illumina geo limma
updated 9.1 years ago by 52k • written 9.1 years ago by ▴ 30
2
votes
4
replies
2.0k
views
read bead-level data directly by lumi
bead-level GEO lumi
updated 9.4 years ago by ★ 6.6k • written 9.4 years ago by • 0
1
vote
2
replies
1.8k
views
readIllumina couln't read bead-level txt file from GEO raw data
beadarray bead-level GEO lumi
updated 9.4 years ago by ★ 6.6k • written 9.4 years ago by • 0
0
votes
1
reply
1.3k
views
data handling from GSE22216 to exprSet object
GEO
updated 9.5 years ago by ★ 6.6k • written 9.5 years ago by ▴ 10
0
votes
5
replies
2.4k
views
collect an expression dataset
limma CEL GEO affydata expresiondataset
updated 9.7 years ago by ★ 3.4k • written 9.7 years ago by • 0
0
votes
1
reply
1.6k
views
Getting data from GEO
affymetrix microarrays GEO geoquery
updated 9.7 years ago by 68k • written 9.7 years ago by • 0
50 results • Page 1 of 1
Recent ...
Replies
Answer: Highly DE genes but small count difference within conditions by Kapoor Optical Co. • 0
Thank you for sharing this solution! It helped me resolve a similar issue in my R/Bioconductor workflow. [Persol eyeglasses][1] […
Answer: Transcript expression analysis using EdgeR by Gordon Smyth 52k
The theory behind the edgeR differential transcript expression (DTE) pipeline is pretty fully described in the paper that you link to. edge…
Comment: How to detect LacZ tagged cells from single cell by Partly • 0
Well you can't tell yet unless you've tried it, right? [Concrete Construction][1] [1]: http://castillosconcreteconstruction.com/
Comment: DESeq2: Continuous and discreate variables in the design by picasa1983 • 0
Hi Michael, I used your model in the past: `~ Condition + Condition:Age` Now in my dataset I have paired samples: each donor has both Con…
Comment: ORFik: spliced 5utr regions by James W. MacDonald 68k
Please provide a self-contained example so people can reproduce what you are seeing. Also include the output of `sessionInfo`
Votes
Answer: competitive enrichment test yields too few significant results, self-contained t
edgeR for continuous independent variables
EDGE-R exact test vs QL F-test
A: dream vignette says limma-voom repeated measures two-group comparison needs two
A: time series, block by patient, between and within comparisons limma-voom
Awards • All
Popular Question to rekren ▴ 20
Popular Question to mohammedtoufiq91 ▴ 10
Popular Question to shepherl 4.2k
Popular Question to richardallenfriedmanbrooklyn ▴ 30
Popular Question to cossardg ▴ 10
Locations • All
EMBL Heidelberg, 14 minutes ago
USA, 34 minutes ago
Spain, 1 hour ago
India, 1 hour ago
WEHI, Melbourne, Australia, 1 hour ago
Traffic: 504 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6