Showing : microarraydata • reset
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Ph.D. scholar
WGCNA DataNormalization MicroarrayData
updated 20 days ago by ★ 4.7k • written 21 days ago by • 0
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Consistent Decimals In Data After Antibody Array Background Correction Using Limma:nec Function
limma MicroarrayData Normalization
3 months ago Ai • 0
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2
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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
10 months ago Mj.A. • 0
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7
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DEG Filtering
MicroarrayData limma Genefiltering
updated 10 months ago by 52k • written 11 months ago by • 0
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limma: vooma mean-variance trend and data filtration
MicroarrayData limma
11 months ago • updated 10 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 18 months ago by 52k • written 18 months ago by • 0
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Can the limma package be applied to Log2 RUV-normalized data?
RUVnormalizeData MicroarrayData limma
updated 14 months ago by • 0 • written 21 months ago by ▴ 10
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Error in getCdfInfo(object) :
MicroarrayData
22 months ago kobra • 0
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887
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Aligning Clariom D against reference Genome and transcriptome pipeline
Clariom Align MicroarrayData Alignment Microarray
24 months ago agamemnon • 0
2
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771
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Doubts about manipulation and annotation of microarray files deposited at GEO
MicroarrayData Annotation GEOdata
updated 2.0 years ago by 68k • written 2.0 years ago by • 0
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Micro Array GEO data analysis
GEOquery MicroarrayData Normalization Microarray NanoStringDiff
updated 2.0 years ago by 68k • written 2.0 years ago by • 0
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1.3k
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Remove batch effect between microarray data
Microarray DifferentialExpression limma MicroarrayData removebatcheffect
2.1 years ago dqt • 0
2
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2
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782
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2-Way Repeated Measures ANOVA - Affymetrix
AffymetrixChip MicroarrayData Anova
2.3 years ago evan.j.williams ▴ 10
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3.1k
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Advice for the analysis of microarray data with limma
Microarray MicroarrayData limma
updated 2.0 years ago by 52k • written 2.3 years ago by • 0
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730
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Finding negative control in the array using R
R MicroarrayData
updated 2.5 years ago by 68k • written 2.5 years ago by • 0
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687
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Filtering single-channel Affymetrix probes
filtering probe MicroarrayData
2.5 years ago Fatemeh • 0
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2
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1.5k
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the difference between getGEO and getGEOSuppFiles
MicroarrayData
2.5 years ago Fatemeh • 0
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797
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IS DGE possible with normalized microarray expression data and Limma ?
limma MicroarrayData
updated 2.6 years ago by 68k • written 2.6 years ago by • 0
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948
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Compare different cell lines with tissues using limma
limma MicroarrayData Microarray Agilent
updated 2.6 years ago by 52k • written 2.6 years ago by • 0
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1.9k
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Finding differentially expressed genes in a prospective cohort study
limma MicroarrayData Microarray
2.6 years ago YC • 0
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2
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1.1k
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Problem with results of Differential expression in Affymetrix microarray
limma MicroarrayData Microarray Affymetrix
2.7 years ago Mikołaj Mierzejewski • 0
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1.5k
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Affymetrix analysis of microarray by using Limma
limma MicroarrayData Microarray Affymetrix
2.7 years ago Mikołaj Mierzejewski • 0
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Identifying multiple mappings with pd.clariom.d.human
clariomdhumantranscriptcluster.db MicroarrayData Microarray pd.clariom.d.human
2.8 years ago amir.rakhimov.b • 0
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How to extract probe level intensity after rma() normalization
MicroarrayData AffymetrixChip
updated 2.8 years ago by 68k • written 2.8 years ago by • 0
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4
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1.2k
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getProbeInfo and exprs return two different dimensions
CELfile MicroarrayData AffymetrixChip
2.9 years ago Haoran • 0
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1
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1.1k
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R CODE TO FIND AGGREGATE FOR DUPLICATES
aggregateBioVar DEGseq MicroarrayData
updated 3.2 years ago by 68k • written 3.2 years ago by • 0
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943
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Import and Analyze 4 GSE12050_GSM304448.gpr microarrays files
.gpr raw Agilent MicroarrayData import
updated 3.3 years ago by 52k • written 3.3 years ago by • 0
1
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3
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1.5k
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Microarray - Illumina Metadata
limma GEO MicroarrayData affy
updated 3.4 years ago by 68k • written 3.4 years ago by • 0
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781
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Adj. P-value identical and high for all the genes
MicroarrayData
3.4 years ago Adriana • 0
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1.5k
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Extracting a list of genes from the Gene Expression Omnibus with Geoquery.
Microarray GEOquery cancerdata MicroarrayData
updated 3.4 years ago by 68k • written 3.4 years ago by ▴ 50
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5
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Use of arrayWeights with two treatment groups
Microarray arrays limma MicroarrayData
updated 3.6 years ago by 52k • written 3.7 years ago by • 0
1
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1
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1.8k
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How do I adjust for other factors in Limma differential expression analysis?
limma Microarray MicroarrayData arrays
updated 3.8 years ago by ★ 4.0k • written 3.8 years ago by • 0
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How to exclude outlier (Microarray ) from PCA in R
OutlierD pcaMethods MicroarrayData Microarray
3.8 years ago waiyin0923 • 0
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WGCNA - Outliers after creating sample tree
MicroarrayData WGCNA Microarray
4.0 years ago jpwl2 • 0
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4
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1.6k
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Limma outputs different results for same sample?
topTable MicroarrayData ebayes limma Microarray
4.0 years ago snijesh ▴ 200
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9
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1.8k
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limma analysis when only Cy5 was used
MicroarrayData limma Microarray
4.0 years ago Daniel.Schnell • 0
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Comment: Store Matrix in DataFrame Cell by Dario Strbenac ★ 1.6k
It does not appear to work. > DataFrame(name = "test", value = list(matrix(1:4, ncol = 2))) DataFrame with 2 rows and 3 columns …
Comment: Overcoming confounding in batch effect correction by Dario Strbenac ★ 1.6k
Actually, it is directly related. ComBat-seq is a part of [sva][1] package. It should use sva tag. [1]: https://bioconductor.org/package…
Comment: Overcoming confounding in batch effect correction by ATpoint ★ 4.7k
biostars.org and the [bioinformatics reddit][1] are suitable and have much larger audience than this forum here. [1]: https://www.reddi…
Comment: Overcoming confounding in batch effect correction by bbao ▴ 10
Thank you! And apologies for posting here. Do you know which forum I should go to in the future for questions like these?
Comment: For some reason I can't update BiocManager to 3.20 by shepherl 4.1k
interesting. it could be since this is not your installation that it was installed by an admin that you do not have access to perform this…
Votes
Comment: Overcoming confounding in batch effect correction
Answer: Store Matrix in DataFrame Cell
Answer: enrichGOgradient color change
Comment: Overcoming confounding in batch effect correction
Overcoming confounding in batch effect correction
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