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Showing :
Expressionset
•
reset
6
votes
7
replies
3.8k
views
GOexpress: use DESeq2 data object as input
GOexpress
deseq2
expressionset
8.6 years ago
martin.hoelzer
▴ 20
3
votes
9
replies
1.5k
views
How many features an ExpressionSet can contain ?
ExpressionSet
22 months ago
OE
• 0
5
votes
7
replies
1.5k
views
Difficulty extending ExpressionSet
biobase
expressionset
eset
updated 5.8 years ago by
Martin Morgan
25k • written 5.8 years ago by
andrew.birnberg
▴ 20
5
votes
2
replies
852
views
Is the ExpressionSet Class Deprecated?
expressionset
updated 3.7 years ago by
Martin Morgan
25k • written 3.7 years ago by
cannin
▴ 20
2
votes
5
replies
3.9k
views
GSVA error - incomplete instalation?
GSVA
ExpressionSet
8.5 years ago • updated 8.4 years ago
thrabe
• 0
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
1
vote
3
replies
2.2k
views
Log-Transform Values of eSet
expressionset
bioconductor
limma
geoquery
updated 7.5 years ago by
svlachavas
▴ 830 • written 7.5 years ago by
bi_Scholar
• 0
0
votes
6
replies
1.5k
views
expression correlation on an ExpressionSet
ExpressionSet
caseControl
Correlation
Plot
updated 7.0 years ago by
vulegom
• 0 • written 7.3 years ago by
DataFanatic
▴ 10
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
polemiraza
▴ 70 • written 7.6 years ago by
bi_Scholar
• 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
Martin Morgan
25k • written 7.5 years ago by
Guido Hooiveld
★ 3.9k
0
votes
1
reply
927
views
beadarray error conversion
beadarray
limma
ExpressionSet
updated 7.4 years ago by
Gordon Smyth
50k • written 7.4 years ago by
emiliomastriani
• 0
0
votes
1
reply
1.2k
views
single probe represent multiple genes?
gcrma
microarray
expressionset
updated 7.2 years ago by
svlachavas
▴ 830 • written 7.2 years ago by
mathavanbioinfo
▴ 20
0
votes
1
reply
1.1k
views
Problem Subsetting ExpressionSet
expressionset
biobase
bioconductor
updated 7.0 years ago by
James W. MacDonald
65k • written 7.0 years ago by
Tom Oates
▴ 60
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
James W. MacDonald
65k • written 6.8 years ago by
lykhenko.olexandr
• 0
1
vote
10
replies
1.8k
views
Error when restore rownames of Feature data of ExpressionSet
expressionset
updated 6.6 years ago by
Martin Morgan
25k • written 6.6 years ago by
peirinl
• 0
1
vote
2
replies
227
views
Problem with maplot {affy} method when using rma {affy} method output as its input
maplot_function
rma_function
ExpressionSet
MicroarrayData
affy
5 weeks ago
Mj.A.
• 0
2
votes
1
reply
3.1k
views
ExpressionSet: Remove NA values above a certain threshold
expressionset
updated 8.7 years ago by
Aaron Lun
★ 28k • written 8.7 years ago by
philipp24
▴ 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
Martin Morgan
25k • written 8.2 years ago by
svlachavas
▴ 830
1
vote
2
replies
1.4k
views
How can I see that my samples is normalized or not?
Normalization
ExpressionSet
Series
updated 8.2 years ago by
James W. MacDonald
65k • written 8.2 years ago by
vahideh
• 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
0
votes
3
replies
2.5k
views
Annotation in ExpressionSet object
ExpressionSet
globaltest
7.9 years ago
NS
▴ 60
0
votes
1
reply
969
views
ExpressionSet: Internal Standard
expressionset
updated 7.9 years ago by
Steve Lianoglou
★ 13k • written 7.9 years ago by
Herbert Meyer
• 0
1
vote
1
reply
1.1k
views
Generating ExpressionSet Objects
r
expressionset
subseq
rnaseq
updated 7.8 years ago by
Martin Morgan
25k • written 7.8 years ago by
rrcutler
▴ 70
3
votes
2
replies
2.3k
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
James W. MacDonald
65k • written 4.5 years ago by
salamandra
▴ 20
0
votes
1
reply
510
views
ExpressionSet: any shortcut for number-of-samples and number-of-features?
expressionSet
4.0 years ago
aush
▴ 40
4
votes
8
replies
2.3k
views
Help! ExpressionSet function from Biobase not working! (issue with data structure??)
limma
biobase
ExpressionSet
updated 4.0 years ago by
Gordon Smyth
50k • written 4.0 years ago by
sa825
• 0
0
votes
1
reply
685
views
Calculations (averaging and normalization) with expressionset
RTCA
Biobase
Bioconductor
expressionset
updated 3.4 years ago by
James W. MacDonald
65k • written 3.4 years ago by
VanessaOak
• 0
8
votes
23
replies
914
views
Convert Seurat Object to Summarised Experiment or ExpressionSet
SummarizedExperiment
ExpressionSet
updated 21 days ago by
Robert Castelo
★ 3.3k • written 22 days ago by
Bine
▴ 40
0
votes
3
replies
2.1k
views
[ExpressionSet] Question: Error in validObject(.Object)
ExpressionSet
Assay
NanoString
Error
Data
updated 21 months ago by
James W. MacDonald
65k • written 21 months ago by
junli1988
• 0
0
votes
2
replies
994
views
'GO_analyse' function error
goexpress
ExpressionSet
GO_analyse
4.7 years ago
rezashiralmohammad
• 0
0
votes
0
replies
973
views
Error in building expression set for ArrayExpress
microarray
expressionset
arrayexpress
bioconductor
r
6.1 years ago
rf
• 0
0
votes
0
replies
858
views
HTqPCR - unable to create a 'qPCRset' object
htqpcr
expressionset
5.8 years ago
jirkanov
• 0
0
votes
0
replies
727
views
Computing se.exprs in R for an Expressionset?
microarray
Expressionset
se.exprs
5.7 years ago
payam_delfani1980
• 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
1.4k
views
InSilicoMerging error when using merge
insilicomerging
error
insilicodb
expressionset
7.3 years ago
andreas.pittroff
• 0
0
votes
0
replies
1.3k
views
Export expressionSet to ArrayExpress "processed data"
expressionset
simpleaffy
arrayexpress
tsv
7.8 years ago
Steffen Neumann
▴ 30
36 results • Page
1 of 1
Recent ...
Replies
Comment: Deseq2 and Normalization of RNA sequencing data
by
kcarey
• 0
Noise in terms of expression...to make sure that the information reported is not due to artifacts and actually expression. When I had FPKM …
Answer: NEED FOR NESSASORY HELP
by
Gordon Smyth
50k
Is this quesion related to your earlier question? https://support.bioconductor.org/p/9157127/ If you've already done an edgeR analysis, yo…
Answer: Gene-by-sample covariates in limma
by
Gordon Smyth
50k
Your first method would be valid if, instead of taking ratios, you instead used the differences between the log-transformed 13C and 12C int…
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
by
Gordon Smyth
50k
You have discovered something that I have pointed out many times on this forum. fgsea does not implement the classic GSEA method published …
Comment: Once again a "Model matrix not full rank"
by
James W. MacDonald
65k
In that case both time and treatment are identical things, so choose one and go with it.
Votes
Bioconductor 3.19 is Released!
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
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