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<prev • 353 results • page 1 of 12 • next >
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How to create a proper design matrix/contrast matrix for methylation 850k analysis in limma?
methylation analysis R design matrix 850k limma written 18 days ago by michele.zocchi • 0
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2
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477
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2
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Design matrix for voom: with or without batch blocking?
proteomics R limma voom written 13 months ago by hesse.sebastian • 80 • updated 29 days ago by Gordon Smyth • 1.4k
3
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1
answer
219
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1
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limma voom problem
R next-gen limma rna-seq voom written 5 weeks ago by iskysinger • 0 • updated 29 days ago by Gordon Smyth • 1.4k
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1.5k
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2
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miRNA differential expression analysis, no significant adjusted p-values
R limma differential expression mirna written 3.5 years ago by Alexander Skates • 350 • updated 4 weeks ago by husainbioinfos • 0
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483
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How to correctly correct for batch effects
removebatcheffect R pvca limma written 11 months ago by hesse.sebastian • 80 • updated 5 weeks ago by Biostar ♦♦ 20
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134
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5 follow
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How to compare two sets of results from Limma?
R limma rna-seq voom written 6 weeks ago by Colari19 • 40 • updated 5 weeks ago by kristoffer.vittingseerup • 3.0k
2
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124
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How to plot gene_names besides CpGs in microarray methylation heatmap?
differential cpg limma heatmap.2 microarray written 6 weeks ago by maria2019 • 90
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1
answer
120
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1
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How to remove spike ins from illumina beadchip data
ercc illumina limma microarray beadchip written 8 weeks ago by maria2019 • 90 • updated 7 weeks ago by Kevin Blighe ♦ 54k
2
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2.7k
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Script for analyzing idat (illumina) microarray files with limma, any suggestion?
R idat limma written 3.6 years ago by Pol • 60 • updated 8 weeks ago by Gordon Smyth • 1.4k
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1
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156
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1
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Error in inputting multiple illumina microarray idat files to limma
R idat limma microarray written 8 weeks ago by maria2019 • 90 • updated 8 weeks ago by Gordon Smyth • 1.4k
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125
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differential expression analysis with z score normalized microarray data
microarray deg limma written 9 weeks ago by gracie • 20 • updated 8 weeks ago by Biostar ♦♦ 20
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Where to set intensity filtering threshold if oligo::rma returns large peak of very low intensities for Affymetrix microarrays?
microarray filtering limma written 6 months ago by Mari • 0 • updated 9 weeks ago by Biostar ♦♦ 20
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1
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127
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Differentially expressed genes analysis Limma microarray
R limma microarrays written 9 weeks ago by judhenaosa • 0 • updated 9 weeks ago by h.mon ♦ 29k
2
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1
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141
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1
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Interpretation of normalized counts
normalization limma rna-seq voom written 10 weeks ago by ika • 10 • updated 10 weeks ago by Devon Ryan ♦ 94k
3
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1
answer
217
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1
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How can I make boxplot for a single gene from one of the contrasts generated by limma?
boxplot contrasts limma microarray written 12 weeks ago by bioinfo8 • 120 • updated 11 weeks ago by Gordon Smyth • 1.4k
55
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4
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13k
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30 follow
4
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How do I explain the difference between edgeR, LIMMA, DESeq etc. to experimental Biologist/non-bioinformatician
gene limma edger written 2.2 years ago by Mike • 1.5k • updated 11 weeks ago by ariel • 80
9
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1
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310
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7 follow
1
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logFC in topTable problem- almost identical to average expression
R bioconductor limma rna-seq voom written 11 weeks ago by pennakiza • 50 • updated 11 weeks ago by russhh ♦ 5.1k
6
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1
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207
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1
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Functional analysis of RNASeq differentially expressed genes
camera rna-seq ipa gsea limma written 3 months ago by Colari19 • 40 • updated 3 months ago by h.mon ♦ 29k
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112
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differential abundance with Voom - blocking per subject - making contrasts
differential abundance limma voom written 3 months ago by gaio.transposon • 0
2
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1
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148
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1
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Finding DEGenes taking into account the DEG of a compared control condition
R sgrna limma rna-seq edger written 3 months ago by mcalleja • 90
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1.8k
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Contrast matrix for paired samples in limma
R limma written 3.9 years ago by ddzhangzz • 90 • updated 3 months ago by h.mon ♦ 29k
0
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181
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Defining the design for a complicated multi-level experiment in Limma
R limma rna-seq voom written 3 months ago by Colari19 • 40
3
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1
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160
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1
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Voom with QuSAGE
R qusage limma rna-seq voom written 4 months ago by Colari19 • 40 • updated 4 months ago by Gordon Smyth • 1.4k
3
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1
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279
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1
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p-value in Limma vs Graphpad
p-value adj p limma graphpad written 4 months ago by LuisNagano • 40 • updated 4 months ago by dsull • 830
0
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1
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165
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1
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Error when reading microarray idat files from illumina
illumina illuminaio limma R microarray written 4 months ago by salamandra • 280 • updated 4 months ago by h.mon ♦ 29k
1
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257
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Differential Expression Analysis of Two Groups Time Series Data with Limma
microarray limma rna-seq differential expression written 4 months ago by hkarakurt • 80
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2
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276
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5 follow
2
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Analyzing normalized microarray data
R microarray limma written 4 months ago by klarcha • 0 • updated 4 months ago by Gordon Smyth • 1.4k
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446
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How to use limma for a categorial outcome variable? Where outcome is the cohort status and predictor is gene expression.
next-gen rna limma rna-seq written 10 months ago by halo22 • 140 • updated 4 months ago by Biostar ♦♦ 20
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200
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Multi-factor experiment RNAseq limma-voom
limma rna-seq written 4 months ago by judhenaosa • 0
1
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1
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208
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1
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Processing GEO data and calculating differential expression using limma
geo R beadarray limma differential expression written 5 months ago by APJ • 30
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