Showing : MicroarrayData • reset
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Batch correction for microarray
BatchEffect sva MicroarrayData
9 months ago Shaimaa Gamal • 0
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376
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Ph.D. scholar
WGCNA DataNormalization MicroarrayData
updated 11 months ago by ★ 5.0k • written 12 months ago by • 0
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2
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1.5k
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Consistent Decimals In Data After Antibody Array Background Correction Using Limma:nec Function
limma MicroarrayData Normalization
14 months ago Ai • 0
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2
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807
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Problem with maplot {affy} method when using rma {affy} method output as its input
maplot_function rma_function ExpressionSet MicroarrayData affy
22 months ago Mj.A. ▴ 20
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7
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1.7k
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DEG Filtering
MicroarrayData limma Genefiltering
updated 22 months ago by 53k • written 22 months ago by • 0
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6
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1.7k
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limma: vooma mean-variance trend and data filtration
MicroarrayData limma
22 months ago Lily Cheang ▴ 10
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Is it possible to extract the expression of a single group without making comparisons?
MicroarrayData hta20transcriptcluster.db
updated 2.4 years ago by 53k • written 2.4 years ago by • 0
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8
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Can the limma package be applied to Log2 RUV-normalized data?
RUVnormalizeData MicroarrayData limma
updated 2.1 years ago by • 0 • written 2.7 years ago by ▴ 10
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1.5k
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Error in getCdfInfo(object) :
MicroarrayData
2.8 years ago kobra • 0
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1.2k
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Aligning Clariom D against reference Genome and transcriptome pipeline
Clariom Align MicroarrayData Alignment Microarray
2.9 years ago agamemnon • 0
2
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1.1k
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Doubts about manipulation and annotation of microarray files deposited at GEO
MicroarrayData Annotation GEOdata
updated 2.9 years ago by 68k • written 2.9 years ago by • 0
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1
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1.2k
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Micro Array GEO data analysis
GEOquery MicroarrayData Normalization Microarray NanoStringDiff
updated 3.0 years ago by 68k • written 3.0 years ago by • 0
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2
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1.8k
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Remove batch effect between microarray data
Microarray DifferentialExpression limma MicroarrayData removebatcheffect
3.0 years ago dqt • 0
2
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2
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1.1k
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2-Way Repeated Measures ANOVA - Affymetrix
AffymetrixChip MicroarrayData Anova
3.2 years ago evan.j.williams ▴ 10
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4.5k
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Advice for the analysis of microarray data with limma
Microarray MicroarrayData limma
updated 3.0 years ago by 53k • written 3.2 years ago by • 0
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1
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896
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Finding negative control in the array using R
R MicroarrayData
updated 3.4 years ago by 68k • written 3.4 years ago by • 0
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848
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Filtering single-channel Affymetrix probes
filtering probe MicroarrayData
3.4 years ago Fatemeh • 0
2
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2
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2.1k
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the difference between getGEO and getGEOSuppFiles
MicroarrayData
3.4 years ago Fatemeh • 0
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1
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962
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IS DGE possible with normalized microarray expression data and Limma ?
limma MicroarrayData
updated 3.5 years ago by 68k • written 3.5 years ago by • 0
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1
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1.3k
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Compare different cell lines with tissues using limma
limma MicroarrayData Microarray Agilent
updated 3.6 years ago by 53k • written 3.6 years ago by • 0
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2.3k
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Finding differentially expressed genes in a prospective cohort study
limma MicroarrayData Microarray
3.6 years ago YC • 0
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2
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1.4k
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Problem with results of Differential expression in Affymetrix microarray
limma MicroarrayData Microarray Affymetrix
3.6 years ago Mikołaj Mierzejewski • 0
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1.9k
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Affymetrix analysis of microarray by using Limma
limma MicroarrayData Microarray Affymetrix
3.6 years ago Mikołaj Mierzejewski • 0
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1.3k
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Identifying multiple mappings with pd.clariom.d.human
clariomdhumantranscriptcluster.db MicroarrayData Microarray pd.clariom.d.human
3.7 years ago amir.rakhimov.b • 0
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2
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1.2k
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How to extract probe level intensity after rma() normalization
MicroarrayData AffymetrixChip
updated 3.7 years ago by 68k • written 3.7 years ago by • 0
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4
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1.4k
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getProbeInfo and exprs return two different dimensions
CELfile MicroarrayData AffymetrixChip
3.8 years ago Haoran • 0
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1
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1.4k
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R CODE TO FIND AGGREGATE FOR DUPLICATES
aggregateBioVar DEGseq MicroarrayData
updated 4.1 years ago by 68k • written 4.1 years ago by • 0
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1
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1.2k
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Import and Analyze 4 GSE12050_GSM304448.gpr microarrays files
.gpr raw Agilent MicroarrayData import
updated 4.2 years ago by 53k • written 4.2 years ago by • 0
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3
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1.8k
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Microarray - Illumina Metadata
limma GEO MicroarrayData affy
updated 4.3 years ago by 68k • written 4.3 years ago by • 0
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2
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964
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Adj. P-value identical and high for all the genes
MicroarrayData
4.3 years ago Adriana • 0
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1.8k
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Extracting a list of genes from the Gene Expression Omnibus with Geoquery.
Microarray GEOquery cancerdata MicroarrayData
updated 4.4 years ago by 68k • written 4.4 years ago by ▴ 50
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5
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2.6k
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Use of arrayWeights with two treatment groups
Microarray arrays limma MicroarrayData
updated 4.6 years ago by 53k • written 4.6 years ago by • 0
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1
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2.2k
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How do I adjust for other factors in Limma differential expression analysis?
limma Microarray MicroarrayData arrays
updated 4.7 years ago by ★ 4.0k • written 4.7 years ago by • 0
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2
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2.9k
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How to exclude outlier (Microarray ) from PCA in R
OutlierD pcaMethods MicroarrayData Microarray
4.8 years ago waiyin0923 • 0
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2
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2.4k
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WGCNA - Outliers after creating sample tree
MicroarrayData WGCNA Microarray
4.9 years ago jpwl2 • 0
9
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4
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2.0k
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Limma outputs different results for same sample?
topTable MicroarrayData ebayes limma Microarray
4.9 years ago snijesh ▴ 200
3
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9
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2.3k
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limma analysis when only Cy5 was used
MicroarrayData limma Microarray
5.0 years ago • updated 4.9 years ago Daniel.Schnell • 0
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Comment: Pairwise comparison of multiple groups with different base by ja569116 • 0
Hi @mikelove I have a similar situation, and I feel that I have interpreted the results in the wrong way. In my case I would like to identi…
Comment: Are individual-mouse-based statistics possible in CellChat? by TikTsossakaas33ocissalpc • 0
Questions about comparing groups and statistical significance highlight how data driven thinking matters across fields. In online mobile ga…
Comment: DESeq2 - how many surrogate variables from svaseq, use of lfcshrink by ja569116 • 0
Hi @atpoint Thanks for the information. Could you please expand on when to use adjusted p-values vs nominal p-values. My understanding was …
Answer: limpa analysis advice by Gordon Smyth 53k
It is actually very hard to estimate the DPC from observed data, because the curve is function of unobserved intensities rather than a func…
Answer: When to use edgeR or limma by Gordon Smyth 53k
The short answer is that we generally prefer edgeR for applications with lots of small counts and limma for complex designs with random eff…
Votes
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
A: deseq2 - paired samples in 2 sequencing types with very different library sizes
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