Showing : Microarray • reset
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How do I adjust for other factors in Limma differential expression analysis?
limma Microarray MicroarrayData arrays
updated 4 days ago by 2.9k • written 5 days ago by • 0
1
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2
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199
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RUV4 for microarrays
RUV4 RUV Microarray
18 days ago • updated 12 days ago Antonio • 0
0
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2
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98
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How to exclude outlier (Microarray ) from PCA in R
OutlierD pcaMethods MicroarrayData Microarray
27 days ago waiyin0923 • 0
0
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1
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91
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Microarray: Build annotation for HT MG430PM affymetrix
AffymetrixChip Microarray affymetrix
updated 5 weeks ago by ★ 2.9k • written 5 weeks ago by • 0
1
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2
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121
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How to quantile normalize arraystar lncRNA microarray data?
limma Microarray
6 weeks ago • updated 24 days ago a.deb • 0
3
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3
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171
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Weird MAplot with DEGs lying along the diagonals
limma Microarray AgilentChip MA-plot Normalization
9 weeks ago • updated 8 weeks ago Federico Alessandro • 0
0
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2
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142
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WGCNA - Outliers after creating sample tree
MicroarrayData WGCNA Microarray
12 weeks ago jpwl2 • 0
5
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4
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187
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Limma outputs different results for same sample?
topTable MicroarrayData ebayes limma Microarray
3 months ago snijesh • 0
1
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2
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149
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How to do limma on 3 factors with multiple levels (e.g 3-way anova) on microarray log values
interactions 3factors limma Microarray
3 months ago Dan ▴ 10
3
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9
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252
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limma analysis when only Cy5 was used
MicroarrayData limma Microarray
3 months ago Daniel.Schnell • 0
0
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1
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515
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Creating a model matrix for three age groups using two-colour arrays
Microarray BRAIN Microarray BRAIN
updated 3 months ago by 42k • written 12.5 years ago by ▴ 10
5
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8
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1.1k
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how to annotate arrays
affy annotation microarray oligo
updated 5 months ago by 56k • written 5.8 years ago by • 0
0
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1
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228
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Normalisation of protein micro array data using VSN
microarray normalization protein
updated 6 months ago by 13k • written 23 months ago by • 0
0
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2
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137
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Convert MethyLumiSet into RGChannelSet (Illumina EPIC methylation data)
methylumi minfi microarray epic
13 months ago • updated 6 months ago Nala • 0
0
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0
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188
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how to find consensus modules between 2 datasets by different platform through WGCNA
consensusmodule microarray RNA-seq WGCNA
7 months ago • updated 6 months ago modarzi ▴ 10
1
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3
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269
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Annotating [HuGene-1_0-st] Affymetrix Human Gene 1.0 ST Array [transcript (gene) version] file
microarray annotation affy
7 months ago kiera.lee ▴ 10
4
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7
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221
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Limma sample groups
microarray limma affy cancer
updated 7 months ago by 42k • written 7 months ago by • 0
0
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2
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150
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Regarding ArrayExpress package
microarray arrayexpress
updated 7 months ago by 56k • written 7 months ago by • 0
0
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2
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186
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What is the best way to do annotation of the transcript clusters and filter in HTA 2.0
HTA2.0 microarray affy r
7 months ago Marco_aurelio • 0
0
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2
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139
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can negative value microarray matrix data analysed by limma directly
limma microarray normalization
updated 8 months ago by 2.9k • written 8 months ago by • 0
1
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5
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193
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TCGA: clinical data and expression data
microarray annotation cancer
updated 8 months ago by 2.9k • written 8 months ago by • 0
3
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1
reply
147
views
Create a '.db' package for agilent
R agilent microarray
updated 8 months ago by 56k • written 8 months ago by • 0
0
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1
reply
168
views
Problem for installing arrayQualityMetrics package?
R Microarray
updated 8 months ago by 2.9k • written 8 months ago by ▴ 10
0
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1
reply
96
views
Input of tscR
microarray normalization tscR time-course
updated 9 months ago by 2.9k • written 9 months ago by • 0
1
vote
1
reply
159
views
Error in GO enrichment with topGO
topGO microarray Gene ontology
updated 10 months ago by 56k • written 10 months ago by ▴ 10
1
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2
replies
115
views
How to construct matrix and fit linear model for this microarray?
microarray dge matrix makecontrasts limma
updated 10 months ago by 42k • written 10 months ago by ▴ 10
2
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3
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139
views
Annotation package generation for HTA-2_0 by pdInfoBuilder fails
microarray pdInfoBuilder oligo
updated 10 months ago by 56k • written 10 months ago by • 0
4
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9
replies
242
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Pipeline to analyzing Microarray data set( GSE files from NCBI GEO)
microarray affy
updated 10 months ago by 2.9k • written 10 months ago by ▴ 10
0
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2
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107
views
Installing EnhancedVolcano package in R
microarray software error
updated 10 months ago by 2.9k • written 10 months ago by • 0
1
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1
reply
117
views
Problem in analyzing microarray with duplicate or triplicate data
microarray limma
11 months ago peirinl • 0
1
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4
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155
views
How to compare a single RNA-Seq sample with microarray samples?
voom rna-seq microarray
updated 11 months ago by 56k • written 11 months ago by ▴ 10
0
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2
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111
views
How to process triplicate cel data?
microarray affy cel drugmatrix
updated 11 months ago by 42k • written 11 months ago by • 0
6
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3
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187
views
GEOquery: preprocessing log of imported data
GEOquery microarray lumi affy limma
updated 11 months ago by 21k • written 11 months ago by ▴ 40
1
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2
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89
views
Partial NA coefficients for 10 probe(s) Limma
limma microarray cancer
updated 12 months ago by 2.9k • written 13 months ago by • 0
0
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4
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231
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Agilent two-color microarray analysis with limma: 2x3 factorial design
limma microarray contrast matrix 2x3 factorial design differential expression
updated 13 months ago by 42k • written 13 months ago by • 0
0
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1
reply
105
views
Problem analyzing Affymetrix Microarray data from Clariom S Mouse
affy oligo Clariom S Mouse microarray
updated 13 months ago by 56k • written 13 months ago by • 0
1
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5
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146
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Interpreting a paired limma model
limma microarray
updated 13 months ago by 56k • written 13 months ago by • 0
2
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4
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119
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After successful installation of package why it shows that Error?
software error microarray
updated 13 months ago by 33k • written 13 months ago by ▴ 20
0
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1
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98
views
Affymetrix microarray - Limma on timepoint experiment, how to make the design and contrast matrix ?
limma R microarray timepoint affy
updated 13 months ago by 2.7k • written 13 months ago by • 0
0
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0
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67
views
fit gene distribution to negative binomial
microarray
13 months ago fabien.tell • 0
1
vote
1
reply
132
views
Trouble using affy library
software error R microarray affy
updated 14 months ago by 56k • written 14 months ago by • 0
1
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4
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97
views
package to analyze generic protein microarray data
microarray protein analysis ProteomeProfiler
updated 14 months ago by 42k • written 14 months ago by • 0
2
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3
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393
views
Absence of significant gene in DEG list
limma microarray
3.1 years ago • updated 14 months ago nia ▴ 20
19
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0
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25k
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limma moderated t-statistics and B-statistics
Microarray limma
16.7 years ago • updated 6 months ago Gordon Smyth 42k
0
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2
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106
views
csSAMfit with covariates
limma microarray deconvolution cell type
updated 15 months ago by 42k • written 15 months ago by • 0
0
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2
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103
views
arrayQualityMetrics R for outlier detection
microarray outlier detection
updated 15 months ago by 42k • written 15 months ago by ▴ 20
6
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6
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1.3k
views
Finding enriched pathways from a gene list.
microarray limma kegg ENTREZ enrichment analysis
updated 15 months ago by 42k • written 15 months ago by ▴ 50
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0
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93
views
metaDE R and RRA R
microarray meta analysis
15 months ago lily ▴ 20
2
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2
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128
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Microarray expression analysis
microarray normalization CEL.gz
updated 15 months ago by 56k • written 15 months ago by • 0
4
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5
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263
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All genes display positive fold change in topTable results after limma
limma microarray foldchange DEG GEO
updated 15 months ago by 42k • written 15 months ago by ▴ 30
50 results • Page 1 of 1
Recent ...
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Comment: phenotypic table for DESeqDataSetFromHTSeqCount by Michael Love 33k
Oh sorry I didn't see any code including a `directory` argument in your post. Then to debug do: ``` file.exists(file.path(directory, samp…
Comment: phenotypic table for DESeqDataSetFromHTSeqCount by rbenel ▴ 20
The vector contains just `FALSE`... So where is the `directory` parameter set to read files from? Currently I have `directory` set to a t…
Comment: `aperm`, `realize`, `writeHDF5Array`, and `ReshapedHDF5Array` are block size awa by Koki • 0
Ok, I got the gist of it. If I have the same situation of the previous case (https://support.bioconductor.org/p/9136736/), where I have to…
Answer: DESeq2 Design matrix by Michael Love 33k
Usually one would use a single design and extract comparisons. With a complex design, you should partner with someone familiar with linear …
Comment: `aperm`, `realize`, `writeHDF5Array`, and `ReshapedHDF5Array` are block size awa by Hervé Pagès 14k
> For example, the following codes use a combination of delayed operation and block-processed operation but the code as a whole does not ex…
Votes
Answer: erorr in normalization with DiffBind: pv$binding[, colnum] <- pv$peaks[[i]]$RPKM
Answer: phenotypic table for DESeqDataSetFromHTSeqCount
Comment: `aperm`, `realize`, `writeHDF5Array`, and `ReshapedHDF5Array` are block size awa
Answer: Error: C stack usage of HDF5Array
Answer: "dim<-" against on-disk arrays
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