Showing : expressionset • reset
8
votes
23
replies
793
views
Convert Seurat Object to Summarised Experiment or ExpressionSet
SummarizedExperiment ExpressionSet
updated 8 days ago by ★ 3.2k • written 10 days ago by ▴ 40
1
vote
2
replies
208
views
Problem with maplot {affy} method when using rma {affy} method output as its input
maplot_function rma_function ExpressionSet MicroarrayData affy
25 days ago • updated 24 days ago Mj.A. • 0
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
3
votes
9
replies
1.4k
views
How many features an ExpressionSet can contain ?
ExpressionSet
22 months ago OE • 0
0
votes
1
reply
678
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
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
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
0
votes
1
reply
499
views
ExpressionSet: any shortcut for number-of-samples and number-of-features?
expressionSet
4.0 years ago aush ▴ 40
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
0
votes
2
replies
984
views
'GO_analyse' function error
goexpress ExpressionSet GO_analyse
4.6 years ago rezashiralmohammad • 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
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
0
votes
0
replies
849
views
HTqPCR - unable to create a 'qPCRset' object
htqpcr expressionset
5.7 years ago jirkanov • 0
0
votes
0
replies
961
views
Error in building expression set for ArrayExpress
microarray expressionset arrayexpress bioconductor r
6.1 years ago rf • 0
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
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
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
1.1k
views
Problem Subsetting ExpressionSet
expressionset biobase bioconductor
updated 6.9 years ago by 65k • written 6.9 years ago by ▴ 60
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
1
reply
1.4k
views
InSilicoMerging error when using merge
insilicomerging error insilicodb expressionset
7.2 years ago andreas.pittroff • 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
0
votes
1
reply
916
views
beadarray error conversion
beadarray limma ExpressionSet
updated 7.4 years ago by 50k • written 7.4 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
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
3
votes
5
replies
1.6k
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
0
votes
0
replies
1.3k
views
Export expressionSet to ArrayExpress "processed data"
expressionset simpleaffy arrayexpress tsv
7.7 years ago Steffen Neumann ▴ 30
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
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
3
replies
2.5k
views
Annotation in ExpressionSet object
ExpressionSet globaltest
7.9 years ago NS ▴ 60
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
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
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
2
votes
5
replies
3.9k
views
GSVA error - incomplete instalation?
GSVA ExpressionSet
8.4 years ago thrabe • 0
6
votes
7
replies
3.7k
views
GOexpress: use DESeq2 data object as input
GOexpress deseq2 expressionset
8.5 years ago martin.hoelzer ▴ 20
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
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
36 results • Page 1 of 1
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Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Chris • 0
Thanks Robert!
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Robert Castelo ★ 3.2k
Hi, your `c2` object storing all the gene sets is probably a `list` object, where element names are the names of the pathways given by MSig…
Comment: Differential peaks that were not identified in diffbind were identified in diseq by lonn • 0
I tried the default normalization and got similar results as above. Perhaps I need to try identifying the difference peak without using dif…
Answer: Cannabis and KEGGgraph by deeenes ▴ 30
Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) cs…
Answer: RNAseq:Technical replicates from different batches by Gordon Smyth 50k
I am not entirely clear what you mean by "technical" replicates in this case. Are they resequencing of the same RNA samples or are they fre…
Votes
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
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