Showing : expressionset • reset
8
votes
23
replies
760
views
Convert Seurat Object to Summarised Experiment or ExpressionSet
SummarizedExperiment ExpressionSet
updated 7 days ago by ★ 3.2k • written 8 days ago by ▴ 40
6
votes
7
replies
3.7k
views
GOexpress: use DESeq2 data object as input
GOexpress deseq2 expressionset
8.5 years ago martin.hoelzer ▴ 20
5
votes
2
replies
840
views
Is the ExpressionSet Class Deprecated?
expressionset
updated 3.6 years ago by 25k • written 3.6 years ago by ▴ 20
5
votes
7
replies
1.5k
views
Difficulty extending ExpressionSet
biobase expressionset eset
updated 5.7 years ago by 25k • written 5.7 years ago by ▴ 20
4
votes
3
replies
1.2k
views
How to set custom Brainarray annotation for Biobase ExpressionSet object?
affymetrix microarrays expressionset biobase annotation brainarray
updated 6.8 years ago by 65k • written 6.8 years ago by • 0
4
votes
8
replies
2.2k
views
Help! ExpressionSet function from Biobase not working! (issue with data structure??)
limma biobase ExpressionSet
updated 4.0 years ago by 50k • written 4.0 years ago by • 0
3
votes
3
replies
1.8k
views
Error running CellMix SampleAnalysis vignette
software error cellmix vignette expressionset
7.3 years ago gabor.halasz • 0
3
votes
5
replies
1.5k
views
Get Gen-Expression values accross samples for ONE Gene given by Gene-Symbol
expressionset bioconductor
updated 7.6 years ago by ▴ 70 • written 7.6 years ago by • 0
3
votes
2
replies
2.2k
views
Error object and replacement value dimnames differ, when changing column names of assayData of ExpressionSet (although dimension is same)
oligo GEOquery ExpressionSet
updated 4.5 years ago by 65k • written 4.5 years ago by ▴ 20
3
votes
10
replies
2.3k
views
Question about converting rownames of an expression dataset to their corresponding gene symbols
filtering bioconductor genesymbols expressionset
9.1 years ago svlachavas ▴ 830
3
votes
9
replies
1.4k
views
How many features an ExpressionSet can contain ?
ExpressionSet
22 months ago OE • 0
2
votes
5
replies
3.9k
views
GSVA error - incomplete instalation?
GSVA ExpressionSet
8.4 years ago thrabe • 0
2
votes
1
reply
3.1k
views
ExpressionSet: Remove NA values above a certain threshold
expressionset
updated 8.7 years ago by ★ 28k • written 8.7 years ago by ▴ 30
2
votes
4
replies
1.9k
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 8.2 years ago by 25k • written 8.2 years ago by ▴ 830
1
vote
2
replies
207
views
Problem with maplot {affy} method when using rma {affy} method output as its input
maplot_function rma_function ExpressionSet MicroarrayData affy
23 days ago Mj.A. • 0
1
vote
2
replies
1.4k
views
How can I see that my samples is normalized or not?
Normalization ExpressionSet Series
updated 8.1 years ago by 65k • written 8.1 years ago by • 0
1
vote
1
reply
1.0k
views
Combining more than 2 ExpressionSets at the same time,
expressionset combine concatenate combineTwoExpressionSet
8.0 years ago g_draculla ▴ 10
1
vote
1
reply
1.0k
views
Generating ExpressionSet Objects
r expressionset subseq rnaseq
updated 7.8 years ago by 25k • written 7.8 years ago by ▴ 70
1
vote
3
replies
2.2k
views
Log-Transform Values of eSet
expressionset bioconductor limma geoquery
updated 7.5 years ago by ▴ 830 • written 7.5 years ago by • 0
1
vote
2
replies
3.0k
views
how to update feature data with different dimensions in expressionSet?
biobase eSet expressionSet
updated 7.5 years ago by 25k • written 7.5 years ago by ★ 3.9k
1
vote
10
replies
1.8k
views
Error when restore rownames of Feature data of ExpressionSet
expressionset
updated 6.5 years ago by 25k • written 6.5 years ago by • 0
0
votes
1
reply
1.2k
views
single probe represent multiple genes?
gcrma microarray expressionset
updated 7.2 years ago by ▴ 830 • written 7.2 years ago by ▴ 20
0
votes
3
replies
2.5k
views
Annotation in ExpressionSet object
ExpressionSet globaltest
7.9 years ago NS ▴ 60
0
votes
0
replies
958
views
Error in building expression set for ArrayExpress
microarray expressionset arrayexpress bioconductor r
6.1 years ago rf • 0
0
votes
0
replies
847
views
HTqPCR - unable to create a 'qPCRset' object
htqpcr expressionset
5.7 years ago jirkanov • 0
0
votes
0
replies
723
views
Computing se.exprs in R for an Expressionset?
microarray Expressionset se.exprs
5.6 years ago payam_delfani1980 • 0
0
votes
2
replies
983
views
'GO_analyse' function error
goexpress ExpressionSet GO_analyse
4.6 years ago rezashiralmohammad • 0
0
votes
1
reply
1.3k
views
InSilicoMerging error when using merge
insilicomerging error insilicodb expressionset
7.2 years ago andreas.pittroff • 0
0
votes
1
reply
498
views
ExpressionSet: any shortcut for number-of-samples and number-of-features?
expressionSet
4.0 years ago aush ▴ 40
0
votes
6
replies
1.5k
views
expression correlation on an ExpressionSet
ExpressionSet caseControl Correlation Plot
updated 6.9 years ago by • 0 • written 7.2 years ago by ▴ 10
0
votes
1
reply
914
views
beadarray error conversion
beadarray limma ExpressionSet
updated 7.4 years ago by 50k • written 7.4 years ago by • 0
0
votes
1
reply
676
views
Calculations (averaging and normalization) with expressionset
RTCA Biobase Bioconductor expressionset
updated 3.4 years ago by 65k • written 3.4 years ago by • 0
0
votes
0
replies
1.3k
views
Export expressionSet to ArrayExpress "processed data"
expressionset simpleaffy arrayexpress tsv
7.7 years ago Steffen Neumann ▴ 30
0
votes
3
replies
2.1k
views
[ExpressionSet] Question: Error in validObject(.Object)
ExpressionSet Assay NanoString Error Data
updated 21 months ago by 65k • written 21 months ago by • 0
0
votes
1
reply
960
views
ExpressionSet: Internal Standard
expressionset
updated 7.9 years ago by ★ 13k • written 7.9 years ago by • 0
0
votes
1
reply
1.1k
views
Problem Subsetting ExpressionSet
expressionset biobase bioconductor
updated 6.9 years ago by 65k • written 6.9 years ago by ▴ 60
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Comment: Differential peaks that were not identified in diffbind were identified in diseq by lonn • 0
Thank you for your suggestions! Here is the MA plot: ![enter image description here][1] I tried several normalization methods with DiffBi…
Answer: OrgDb for maize by Guido Hooiveld ★ 3.9k
I notice the data you are working with is based on `ensembl` ids. This is important, because the `OrgDb` are annotation databases that are …
Comment: Theoretical WGCNA Question by Garrett • 0
Thanks Peter!
Comment: FGSEA pre-ranked input in increasing order or decreasing by sropri • 0
Thank you!
Comment: FGSEA pre-ranked input in increasing order or decreasing by alserg ▴ 240
They are reorder in the decreasing order.
Votes
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
Comment: DEXSeq DEXSeqDataSet count matrix duplication
Comment: Error in champ.load(): The following specified files do not exist
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