Showing : expressionSet • reset
8
votes
23
replies
3.6k
views
Convert Seurat Object to Summarised Experiment or ExpressionSet
SummarizedExperiment ExpressionSet
updated 10 months ago by ★ 3.4k • written 10 months ago by ▴ 50
1
vote
2
replies
488
views
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
0
votes
3
replies
2.8k
views
[ExpressionSet] Question: Error in validObject(.Object)
ExpressionSet Assay NanoString Error Data
updated 2.6 years ago by 68k • written 2.6 years ago by • 0
3
votes
9
replies
1.9k
views
How many features an ExpressionSet can contain ?
ExpressionSet
2.7 years ago OE • 0
0
votes
1
reply
901
views
Calculations (averaging and normalization) with expressionset
RTCA Biobase Bioconductor expressionset
updated 4.2 years ago by 68k • written 4.2 years ago by • 0
5
votes
2
replies
1.1k
views
Is the ExpressionSet Class Deprecated?
expressionset
updated 4.5 years ago by 25k • written 4.5 years ago by ▴ 20
4
votes
8
replies
3.0k
views
Help! ExpressionSet function from Biobase not working! (issue with data structure??)
limma biobase ExpressionSet
updated 4.8 years ago by 52k • written 4.8 years ago by • 0
0
votes
1
reply
706
views
ExpressionSet: any shortcut for number-of-samples and number-of-features?
expressionSet
4.8 years ago aush ▴ 40
3
votes
2
replies
2.8k
views
Error object and replacement value dimnames differ, when changing column names of assayData of ExpressionSet (although dimension is same)
oligo GEOquery ExpressionSet
updated 5.3 years ago by 68k • written 5.3 years ago by ▴ 20
0
votes
2
replies
1.2k
views
'GO_analyse' function error
goexpress ExpressionSet GO_analyse
5.5 years ago rezashiralmohammad • 0
0
votes
0
replies
847
views
Computing se.exprs in R for an Expressionset?
microarray Expressionset se.exprs
6.5 years ago payam_delfani1980 • 0
5
votes
7
replies
1.9k
views
Difficulty extending ExpressionSet
biobase expressionset eset
updated 6.6 years ago by 25k • written 6.6 years ago by ▴ 20
0
votes
0
replies
1.0k
views
HTqPCR - unable to create a 'qPCRset' object
htqpcr expressionset
6.6 years ago jirkanov • 0
0
votes
0
replies
1.2k
views
Error in building expression set for ArrayExpress
microarray expressionset arrayexpress bioconductor r
6.9 years ago rf • 0
1
vote
10
replies
2.3k
views
Error when restore rownames of Feature data of ExpressionSet
expressionset
updated 7.4 years ago by 25k • written 7.4 years ago by • 0
4
votes
3
replies
1.3k
views
How to set custom Brainarray annotation for Biobase ExpressionSet object?
affymetrix microarrays expressionset biobase annotation brainarray
updated 7.6 years ago by 68k • written 7.6 years ago by • 0
0
votes
6
replies
1.8k
views
expression correlation on an ExpressionSet
ExpressionSet caseControl Correlation Plot
updated 7.8 years ago by • 0 • written 8.1 years ago by ▴ 10
0
votes
1
reply
1.3k
views
Problem Subsetting ExpressionSet
expressionset biobase bioconductor
updated 7.8 years ago by 68k • written 7.8 years ago by ▴ 60
0
votes
1
reply
1.4k
views
single probe represent multiple genes?
gcrma microarray expressionset
updated 8.0 years ago by ▴ 840 • written 8.0 years ago by ▴ 20
0
votes
1
reply
1.6k
views
InSilicoMerging error when using merge
insilicomerging error insilicodb expressionset
8.0 years ago andreas.pittroff • 0
3
votes
3
replies
2.1k
views
Error running CellMix SampleAnalysis vignette
software error cellmix vignette expressionset
8.1 years ago gabor.halasz • 0
0
votes
1
reply
1.1k
views
beadarray error conversion
beadarray limma ExpressionSet
updated 8.2 years ago by 52k • written 8.2 years ago by • 0
1
vote
2
replies
3.4k
views
how to update feature data with different dimensions in expressionSet?
biobase eSet expressionSet
updated 8.3 years ago by 25k • written 8.3 years ago by ★ 4.1k
1
vote
3
replies
2.5k
views
Log-Transform Values of eSet
expressionset bioconductor limma geoquery
updated 8.3 years ago by ▴ 840 • written 8.3 years ago by • 0
3
votes
5
replies
1.8k
views
Get Gen-Expression values accross samples for ONE Gene given by Gene-Symbol
expressionset bioconductor
updated 8.4 years ago by ▴ 70 • written 8.4 years ago by • 0
0
votes
0
replies
1.5k
views
Export expressionSet to ArrayExpress "processed data"
expressionset simpleaffy arrayexpress tsv
8.5 years ago Steffen Neumann ▴ 30
1
vote
1
reply
1.2k
views
Generating ExpressionSet Objects
r expressionset subseq rnaseq
updated 8.6 years ago by 25k • written 8.6 years ago by ▴ 70
0
votes
1
reply
1.1k
views
ExpressionSet: Internal Standard
expressionset
updated 8.7 years ago by ★ 13k • written 8.7 years ago by • 0
0
votes
3
replies
2.9k
views
Annotation in ExpressionSet object
ExpressionSet globaltest
8.7 years ago NS ▴ 60
1
vote
1
reply
1.2k
views
Combining more than 2 ExpressionSets at the same time,
expressionset combine concatenate combineTwoExpressionSet
8.8 years ago g_draculla ▴ 10
1
vote
2
replies
1.7k
views
How can I see that my samples is normalized or not?
Normalization ExpressionSet Series
updated 9.0 years ago by 68k • written 9.0 years ago by • 0
2
votes
4
replies
2.1k
views
Weird error after trying to subset an microarray expression set with gene symbols from topTable function from limma
expressionset limma annotation affymetrix microarrays
updated 9.0 years ago by 25k • written 9.0 years ago by ▴ 840
2
votes
5
replies
5.1k
views
GSVA error - incomplete instalation?
GSVA ExpressionSet
9.3 years ago • updated 9.2 years ago thrabe • 0
6
votes
7
replies
4.2k
views
GOexpress: use DESeq2 data object as input
GOexpress deseq2 expressionset
9.4 years ago martin.hoelzer ▴ 20
2
votes
1
reply
3.4k
views
ExpressionSet: Remove NA values above a certain threshold
expressionset
updated 9.5 years ago by ★ 28k • written 9.5 years ago by ▴ 30
3
votes
10
replies
2.7k
views
Question about converting rownames of an expression dataset to their corresponding gene symbols
filtering bioconductor genesymbols expressionset
9.9 years ago svlachavas ▴ 840
36 results • Page 1 of 1
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Answer: SingleR with multiple single cell references by Aaron Lun ★ 28k
> Is it necessary to piece together the individual steps manually (e.g. aggregateReference, trainSingleR, classifySingleR, combineRecompute…
Answer: Automatically install dependencies by ATpoint ★ 4.7k
The BiocManager, which is sort of an extended wrapper around `install.packages`, installs all R dependencies. If you see errors then this i…
Answer: To count or not to count multi-overlapping reads? by Gordon Smyth 52k
> How does it handle reads that map to a gene that is located in a region that also has another gene but on the alternate strand? Overlapp…
Comment: Weird p-values using DESeq2? by ATpoint ★ 4.7k
This does not look like normalized counts but raw counts. Consider using `counts(dds, normalized = TRUE)` or the output of `normTransform()…
Answer: Weird p-values using DESeq2? by Wolfgang Huber ★ 13k
Dear Ingrid, thank you for asking. Can you provide the input count matrix (you can "pseudonymize" the biological conditions and the gene n…
Votes
A: Fraction count for multi mapping reads; how to generate input file for Deseq2 fo
Comment: Weird p-values using DESeq2?
Comment: Overcoming confounding in batch effect correction
Answer: Store Matrix in DataFrame Cell
Answer: enrichGOgradient color change
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