Showing : microarray • reset
1
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2
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5.8k
views
WGCNA distance measures, clustering with TOM based on adjacency matrix type = "distance" versus correlation
wgcna microarray clustering
updated 10.0 years ago by ★ 3.0k • written 10.0 years ago by • 0
0
votes
5
replies
1.5k
views
annotation
Microarray Microarray
updated 10.0 years ago by • 0 • written 15.5 years ago by ▴ 110
1
vote
8
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1.5k
views
The same statistical test for all multi omic features
limma microarray rnaseq deseq2
10.0 years ago chris86 ▴ 420
4
votes
8
replies
13k
views
how to use idat file for analyses in bioconductor
microarray illumina idat
updated 10.0 years ago by 53k • written 10.0 years ago by ▴ 10
3
votes
1
reply
3.7k
views
Calculating a p value by permutation analysis
microarray
updated 10.0 years ago by 53k • written 10.0 years ago by ▴ 420
3
votes
6
replies
5.9k
views
Affymetrix miRNA 4.0 Normalization and Analysis
R Limma microarray miRNA
updated 4.8 years ago by ▴ 10 • written 10.0 years ago by ▴ 90
0
votes
4
replies
3.6k
views
Illumina ID Mapping library
lumi illumina beadarray microarray
10.0 years ago kritikamish99 ▴ 10
0
votes
2
replies
1.8k
views
Ilumina microarray gene expression
microarray lumi
updated 10.0 years ago by 68k • written 10.0 years ago by ▴ 10
3
votes
10
replies
2.8k
views
Still need help identifying a good workflow for finding DEG in hugene 2.0 st
microarray hugene20 limma oligo
updated 10.0 years ago by ★ 29k • written 10.0 years ago by • 0
0
votes
0
replies
3.1k
views
DE analysis pipeline with Hugene 2.0 ST arrays
hugene20 microarray limma limma paired analysis oligo
10.0 years ago hakimelakhrass • 0
3
votes
3
replies
5.4k
views
Negative values after normalizing an agilent microarray dataset with limma
limma agilent offset background correction microarray
updated 10.0 years ago by 68k • written 10.0 years ago by ▴ 90
4
votes
10
replies
3.2k
views
Limma/oligo always crashing
limma microarray pd.hugene.2.0.st hugene20 oligo
10.0 years ago hakimelakhrass • 0
4
votes
6
replies
3.4k
views
limma: within-array duplicates correlation
limma mirna microarray
updated 10.0 years ago by ★ 29k • written 10.0 years ago by • 0
2
votes
2
replies
2.8k
views
Error while calling function topTable() from limma R package in microarray data analysis
limma microarray a4Core topTable statistical inference
updated 10.0 years ago by ★ 29k • written 10.0 years ago by ▴ 840
0
votes
2
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2.5k
views
Beadarray import of iScan generated Illumina gene expression data
Microarray GO ChipName beadarray Microarray GO ChipName beadarray
updated 10.0 years ago by • 0 • written 14.2 years ago by ▴ 350
0
votes
5
replies
2.2k
views
"oligo" package: probenames/probeinfo different from expr-set (read.cellfles): miRNA 4.0 (affy)
microarray probe annotation affy
10.0 years ago dietmar.pils • 0
4
votes
2
replies
1.8k
views
Integrated genomic analysis - mRNA, proteomics, flow, miRNA-seq
microarray
updated 10.0 years ago by ★ 1.1k • written 10.0 years ago by ▴ 420
0
votes
1
reply
856
views
Interpretation of contrasts
limma microarray
updated 10.0 years ago by ★ 29k • written 10.0 years ago by • 0
3
votes
9
replies
3.2k
views
Annotation problem while quering hgug4112a.db with function select and duplicates for agilent microarray dataset
limma annotation agilent hgug4112a microarray
10.0 years ago Konstantinos Yeles ▴ 90
3
votes
3
replies
2.1k
views
How to define an outlier array from PCA?
microarray PCA outliers sample outliers limma
updated 10.0 years ago by ★ 29k • written 10.0 years ago by ▴ 60
1
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3
replies
2.3k
views
Microarray data analysis for detecting alternative splicing
microarray splicing
updated 10.0 years ago by ▴ 20 • written 11.3 years ago by ▴ 30
7
votes
8
replies
5.9k
views
Model matrix for anova in limma
limma design matrix microarray limma
updated 10.0 years ago by ★ 13k • written 10.2 years ago by ▴ 60
2
votes
2
replies
9.5k
views
Convert Expression Set into a Matrix or Data Frame
microarray biobase affy R
updated 10.0 years ago by ▴ 760 • written 10.0 years ago by • 0
2
votes
5
replies
2.4k
views
fRMA: Applying mouse4302frmavecs on HT_MG-430_PM Arrays
frma microarray affiymetrix
10.1 years ago • updated 10.0 years ago Matthias Z. ▴ 20
7
votes
4
replies
2.2k
views
very high adjusted P-vals using Illumina data from GEO
limma p values microarray illumina
updated 10.1 years ago by 68k • written 10.1 years ago by ▴ 20
2
votes
7
replies
2.4k
views
GEO MicroArray Download, Annotation, and Main Probe Filtering
microarray affy biomart
10.1 years ago anthonycolombo60 • 0
8
votes
8
replies
5.7k
views
Limma: fit a model with duplicateCorrelation()
limma microarray duplicatecorrelation technical replicates linear model
updated 10.1 years ago by ★ 29k • written 10.1 years ago by ▴ 150
4
votes
4
replies
1.9k
views
Comparing DE probes from same-platform microarrays
limma microarray meta-analysis
updated 10.1 years ago by 53k • written 10.1 years ago by ▴ 10
8
votes
15
replies
11k
views
Design matrix for continuous independent variable in limma
limma microarray
10.1 years ago Linda Chaba ▴ 10
0
votes
1
reply
1.5k
views
NUSE lmFit fitPLM
Microarray limma affyPLM
updated 10.1 years ago by 53k • written 13.8 years ago by ▴ 10
2
votes
4
replies
2.8k
views
arrayQualityMetrics error: Error: Unknown parameters: cex.axis
affy microarray arrayqualitymetrics
updated 10.1 years ago by ★ 13k • written 10.1 years ago by ▴ 30
2
votes
2
replies
2.0k
views
Manually compute NUSE score
NUSE qualitycontrol microarray
updated 10.1 years ago by ▴ 760 • written 10.1 years ago by ▴ 40
2
votes
2
replies
1.7k
views
I'm looking for a filtering method that it does't use genewise variances
genefilter liimma microarray
updated 10.1 years ago by ★ 13k • written 10.1 years ago by ▴ 20
0
votes
1
reply
1.6k
views
Error in MetaQC R package.
r metaqc microarray geneexpression
10.1 years ago Agaz Hussain Wani ▴ 260
2
votes
6
replies
3.4k
views
Understanding and creating various comparisons with model.matrix in limma regarding microarrays
limma microarray multifactorial design duplicatecorrelation model.matrix
10.2 years ago • updated 10.1 years ago Konstantinos Yeles ▴ 90
0
votes
3
replies
1.6k
views
intron/exon spanning probes present in the microarray
MA microarray
10.2 years ago serpalma.v ▴ 60
0
votes
1
reply
1.7k
views
Appropriate selection of DE list in limma before and after implementation of arrayWeights in conjuction with duplicateCorrelation functions
limma microarray multifactorial design duplicatecorrelation arrayweights
10.2 years ago svlachavas ▴ 840
1
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1
reply
5.1k
views
Statistical power of limma vs mixed model approach to analyze microarray and differential proteomics/peptidomics experiments and Poisson/binomial mix…
RNASeq Microarray GO limma edgeR DESeq RNASeq Microarray GO limma edgeR DESeq
updated 10.2 years ago by 53k • written 12.6 years ago by ▴ 60
0
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1
reply
2.2k
views
RMA and ComBat for 2 batches with samples in common
microarray normalization sva
updated 10.2 years ago by ▴ 650 • written 10.2 years ago by • 0
0
votes
1
reply
3.3k
views
WGCNA data format?
WGCNA coexpression microarray
updated 10.2 years ago by ★ 3.0k • written 10.2 years ago by • 0
0
votes
1
reply
2.2k
views
PLIER normalization for Affymetrix GeneChip arrays?
microarray affymetrix oligo RMA normalization
updated 10.2 years ago by 68k • written 10.2 years ago by ▴ 20
3
votes
1
reply
2.0k
views
what is fitProbeLevelModel()? doing
affymetrix oligo microarray
updated 10.2 years ago by 68k • written 10.2 years ago by ▴ 20
1
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3
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2.0k
views
confused about bioconductor/release_microarray:3.2 tag
docker microarray
10.2 years ago Karl Forner ▴ 70
1
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2
replies
1.8k
views
BioMart Attributes/Filters missing
microarray agilent biomart annotation
updated 10.2 years ago by 68k • written 10.2 years ago by • 0
3
votes
2
replies
1.4k
views
Non-DGE genes from Limma
limma rnaseq microarray
updated 10.2 years ago by 53k • written 10.2 years ago by ▴ 60
5
votes
1
reply
2.5k
views
Quantile normalization + sva for microarray experiment
sva quantile normalization microarray
updated 10.2 years ago by ★ 7.9k • written 10.2 years ago by ▴ 50
5
votes
5
replies
3.3k
views
Joint Preprocessing of RNA-Seq and Microarray datasets
preprocessing rnaseq microarray
updated 10.2 years ago by 53k • written 10.2 years ago by ▴ 30
0
votes
5
replies
3.4k
views
Load CDF files for Affymetrix ST 2.0 microarrays
microarray oligo cdf customcdf
updated 10.2 years ago by ★ 4.1k • written 10.2 years ago by ▴ 20
1
vote
1
reply
1.7k
views
arrayQualityMetrics for outlier detection
arrayQualityMetrics Microarray Outlier
updated 10.2 years ago by ★ 13k • written 10.2 years ago by ▴ 10
0
votes
0
replies
1.4k
views
Background correction arguments in R package GCRMA for microarray pre-processing analysis
gcrma normalization background correction microarray
10.2 years ago svlachavas ▴ 840
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Answer: DiffBind differential analysis
Answer: Limma-voom sample weights and impact on DEG numbers
C: Why limma, edgeR, and DESeq did not implement fold change moderation first?
Comment: using limma trend workflow in CAMERA
C: z-score with DESeq2?
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