Showing : microarray • reset
0
votes
7
replies
2.2k
views
getting error in processSwathData command from the beadarray package
microarray beadarray illumina
updated 10.7 years ago by ★ 6.6k • written 10.7 years ago by • 0
0
votes
3
replies
2.9k
views
HUgene 2.0 analyses with CEL files, oligo package
microarray annotation hgu133plus2 hugene20
10.7 years ago kanacska ▴ 10
0
votes
3
replies
3.1k
views
Reading Affymetrix data from pd.hugene.2.0.st using affy
affy pd.hugene.2.0.st hugene20 annotation microarray
10.7 years ago kanacska ▴ 10
13
votes
9
replies
9.5k
views
Appropriate use of the function treat of the limma package
limma treat microarray bioconductor
10.7 years ago svlachavas ▴ 840
4
votes
9
replies
4.6k
views
Gene expression differential analysis using TCGA dataset
microarray limma
updated 10.7 years ago by ▴ 140 • written 10.7 years ago by • 0
0
votes
2
replies
2.0k
views
Possible Data integration of molecular data(transcriptomic) and imaging data from the same patients in R
data integration microarray bioconductor affymetrix biomarkers
updated 10.7 years ago by ★ 13k • written 10.7 years ago by ▴ 840
0
votes
2
replies
1.5k
views
difficulty in mapping gene names to probes coordinates in a celfile
microarray probe
updated 10.7 years ago by 68k • written 10.7 years ago by • 0
3
votes
5
replies
2.4k
views
help! new to R! Detection p value cut off
p values microarray FDR
10.7 years ago a • 0
2
votes
4
replies
6.8k
views
T-test for microarray data
limma microarray t.test
updated 10.7 years ago by 25k • written 10.8 years ago by • 0
0
votes
0
replies
2.5k
views
Job: Abbvie -- Senior Manager/Associate Director, Exploratory Statistics
genomics genetics proteomics rnaseq microarray Job
10.7 years ago Feng Hong • 0
4
votes
6
replies
3.1k
views
How to mport publically available RMA processed dataset (on ArrayExpress) into Limma?
limma microarray
updated 10.8 years ago by ★ 29k • written 10.8 years ago by ▴ 10
0
votes
1
reply
1.5k
views
SCAN.UPC for Agilent single channel and Illumina
microarray scan.upc
updated 10.8 years ago by ▴ 600 • written 10.8 years ago by • 0
0
votes
2
replies
3.9k
views
AffyMetrix CEL file; data is already transformed too log2
affy microarray bioinformatics
10.8 years ago kanacska ▴ 10
4
votes
7
replies
3.8k
views
Correct implementation of multifactorial paired analysis in limma software package for DE expression
limma microarray multiple factor design paired
updated 10.8 years ago by 53k • written 10.8 years ago by ▴ 840
1
vote
4
replies
2.7k
views
roast function in Limma
limma microarray differential gene expression
updated 10.8 years ago by 68k • written 10.8 years ago by ▴ 80
0
votes
3
replies
2.6k
views
Affymetrix ReadAffy() can't read my CEL file
microarray affy cancer hgu133plus2 package
updated 10.8 years ago by 68k • written 10.8 years ago by ▴ 10
2
votes
7
replies
2.2k
views
why genefilter does not work for me ?
R microarray genefilter
10.8 years ago Nemo ▴ 80
3
votes
3
replies
1.5k
views
how to perform a Differential gene expression when you don't have any reference matrix?
microarray gene regulated differential gene expression
10.8 years ago Nemo ▴ 80
15
votes
14
replies
4.6k
views
extract similar expressed genes (SEGs) rather than DEGs
limma microarray
updated 10.8 years ago by 21k • written 10.9 years ago by ▴ 340
2
votes
6
replies
3.1k
views
Questions about analysis of GeneChip Rat Gene 2.0 ST Array
microarray affy oligo annotation
10.8 years ago khosoda • 0
0
votes
1
reply
2.7k
views
Interaction terms in Limma
limma microarray
updated 10.8 years ago by 53k • written 10.8 years ago by • 0
0
votes
0
replies
2.1k
views
Any alternative to GenomeStudio to analyze Illumina VeraCode arrays? Is Beadarray an option?
microarray beadarray Illumina Veracode
10.8 years ago lacion • 0
0
votes
1
reply
2.0k
views
Annotation for Agilent chip DesignID 39494 (one color array)
agilent microarray annotation
updated 10.8 years ago by 53k • written 10.9 years ago by ▴ 150
1
vote
2
replies
1.6k
views
How to build a non "gene-centered" annotation package using SQLForge ?
annotation package custom microarray
10.9 years ago becker.jeremie • 0
6
votes
10
replies
5.5k
views
defining a function for multiple paired t.test in many rows of a microarray dataset
microarray r t.test bioconductor
updated 10.9 years ago by 53k • written 10.9 years ago by ▴ 840
9
votes
10
replies
5.8k
views
Simple significance test functions from R packages limma and plsgenomics
limma plsgenomics microarray differential gene expression
updated 10.9 years ago by 53k • written 10.9 years ago by ▴ 10
0
votes
1
reply
1.2k
views
How to do three-color agilent microarray analysis
microarray limma normalization agi4x44preprocess
updated 10.9 years ago by 53k • written 10.9 years ago by • 0
0
votes
1
reply
1.9k
views
Error regarding installation and loading of "Lumi" Package
software error microarray illumina
updated 10.9 years ago by ★ 13k • written 10.9 years ago by ▴ 10
0
votes
1
reply
2.4k
views
RNA degradation plot: why curves are so smooth?
normalization microarray affymetrix
updated 10.9 years ago by 68k • written 10.9 years ago by • 0
2
votes
2
replies
1.9k
views
Custom CDF annotation question
microarray annotation normalization
updated 10.9 years ago by 68k • written 10.9 years ago by • 0
1
vote
1
reply
1.6k
views
What is the best normalization for microarray data?
affymetrics normalization microarray
updated 10.9 years ago by 68k • written 10.9 years ago by • 0
1
vote
1
reply
2.1k
views
How can I find the name of the file that a particular R script is missing?
microarray input files saccharomyces cerevisiae bioconductor
updated 10.9 years ago by ★ 8.2k • written 10.9 years ago by • 0
0
votes
0
replies
1.8k
views
Job: Help with finding R tutors for microarray analysis, next generation sequencing and constructing gene interaction networks needed
bioconductor microarray network tutoring differential gene expression Job
10.9 years ago Thomas.F.Hahn2 • 0
1
vote
2
replies
3.1k
views
Use junction probesets (JUC) to detect alternative splicing on Affymetrix human HTA 2.0 arrays?
microarray affy hta 2.0 junction
11.0 years ago rbao.cri • 0
4
votes
14
replies
6.4k
views
Including technical and biological replicates in Limma block analysis?
limma microarray block paired linear model
11.0 years ago vas ▴ 40
0
votes
2
replies
2.1k
views
LIMMA plot densities command in newest R studio
limma microarray
updated 11.0 years ago by 53k • written 11.0 years ago by • 0
2
votes
2
replies
1.7k
views
problem with custom cdf
microarray affy hgu133plus2 annotation cdf
updated 11.0 years ago by 68k • written 11.0 years ago by • 0
1
vote
1
reply
1.8k
views
design matrix for longitudinal data
limma microarray
updated 11.0 years ago by 53k • written 11.0 years ago by ▴ 30
0
votes
4
replies
1.5k
views
LIMMA separate channel analysis of two-colour data
limma microarray
updated 11.0 years ago by ★ 29k • written 11.0 years ago by • 0
0
votes
3
replies
1.8k
views
Query regarding limma
Microarray limma
updated 11.1 years ago by 53k • written 12.8 years ago by ▴ 130
4
votes
7
replies
7.8k
views
Annotating HTA 2.0 genes
microarray
11.1 years ago statistuta • 0
2
votes
2
replies
2.6k
views
Analysing two-channel Agilent microarray data
limma microarray agilent
updated 11.1 years ago by 53k • written 11.1 years ago by • 0
0
votes
0
replies
1.2k
views
oneChannelGUI - setting APT tools folder
software error microarray onechannelgui
11.1 years ago nextgenseq.bioinfo • 0
0
votes
1
reply
1000
views
platform probes set ID microarray
microarray geoquery
updated 11.1 years ago by 25k • written 11.1 years ago by • 0
3
votes
2
replies
1.6k
views
Differential gene expression of Microarray data
microarray limma volcano plot
updated 11.1 years ago by 53k • written 11.1 years ago by • 0
0
votes
0
replies
1.8k
views
Any R Package To Detect Copy Neutral LOH for SNP 6.0 Array Data
microarray affy snp
11.1 years ago sun ▴ 100
2
votes
4
replies
2.8k
views
a question about input agilent single-channel data to R and analyze
Agilent microarray
updated 11.1 years ago by 53k • written 11.1 years ago by • 0
0
votes
1
reply
717
views
I would like determine the genes from my data
microarray
updated 11.1 years ago by 68k • written 11.1 years ago by • 0
1
vote
1
reply
2.1k
views
Are the logFC confidence intervals returned by topTable adjusted for multiple comparisons?
Microarray qPCR limma
updated 11.2 years ago by 53k • written 11.3 years ago by ▴ 30
0
votes
2
replies
1.4k
views
RMA X prefix to Affymetrix annotations
microarray affy annotation
11.2 years ago robin073 • 0
2,319 results • Page 13 of 47
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Comment: Question about DESeq2 Design for Paired Treatment Study by ATpoint ★ 5.0k
It's a paired analysis so you don't need any patient-specific covariates such as age and sex. What you call batch effect might just be the …
Comment: problem reading bam files into nucleR by efoss ▴ 10
I thought I might be able to track down a problematic line in the bam file by repeatedly splitting the bam file in and then running the co…
Answer: two questions about limma by Gordon Smyth 53k
Answered here: https://support.bioconductor.org/p/16318/
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication? by Ahmed Salah • 0
Thank you very much! will take that into consideration
Comment: Large logFC but somewhat high FDR by JKim • 0
Thank you very much for taking the time to answer the question. I really appreciate your insights and comments.
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Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
Comment: upstream git branches of bioc-release
Comment: upstream git branches of bioc-release
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