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ExperimentData
•
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0
votes
1
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172
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Confused about design for RNA seq experiment
RNAseq
ExperimentData
RNAseq123
RNA
ExperimentalDesign
updated 4 months ago by
ATpoint
★ 2.1k • written 4 months ago by
Mohamed
• 0
0
votes
5
replies
669
views
News:
Final List of Deprecated Packages for Bioc3.14
ExperimentData
Deprecation
Software
Release
Workflow
15 months ago • updated 9 months ago
shepherl
3.4k
2
votes
2
replies
1.0k
views
News:
Final List of Deprecated Packages for Bioc3.13
Workflow
Software
ExperimentData
Deprecation
2.2 years ago • updated 21 months ago
shepherl
3.4k
1
vote
2
replies
883
views
News:
Final List of Deprecated Packages for Bioc3.12
annotation
software
experimentdata
deprecated
News
2.3 years ago
shepherl
3.4k
0
votes
0
replies
380
views
News:
List of Deprecated Packages Bioc 3.11
annotation
experimentdata
software
release
deprecation
News
2.9 years ago
shepherl
3.4k
0
votes
1
reply
448
views
News:
List of Deprecated Packages Bioc 3.11
annotation
experimentdata
software
release
deprecation
News
3.1 years ago
shepherl
3.4k
0
votes
0
replies
459
views
News:
List of Deprecated Packages Bioc 3.11
annotation
experimentdata
software
release
deprecation
News
3.2 years ago
shepherl
3.4k
0
votes
2
replies
835
views
News:
Final List of Deprecated Packages for Bioc3.10
annotation
experimentdata
deprecation
release
software
News
3.3 years ago • updated 3.2 years ago
shepherl
3.4k
0
votes
0
replies
485
views
News:
List of Deprecated Packages Bioc 3.10
annotation
experimentdata
software
release
deprecation
News
3.4 years ago • updated 3.3 years ago
shepherl
3.4k
0
votes
1
reply
611
views
News:
List of Deprecated Packages Bioc 3.10
annotation
experimentdata
software
deprecation
release
News
3.5 years ago • updated 3.4 years ago
shepherl
3.4k
1
vote
5
replies
789
views
News:
Final List of Deprecated Package Bioc 3.9
deprecation
release
software
experimentData
News
3.9 years ago • updated 3.6 years ago
shepherl
3.4k
0
votes
3
replies
604
views
News:
List of Deprecated Packages Bioc 3.10
annotation
experimentdata
software
release
deprecation
News
3.7 years ago
shepherl
3.4k
0
votes
1
reply
479
views
News:
Initial List of Deprecated Packages Bioc 3.10
software
experimentdata
release
deprecation
annotation
News
3.7 years ago
shepherl
3.4k
0
votes
1
reply
756
views
News:
List of Deprecated Package Bioc 3.9
deprecate
release
devel
software
experimentdata
News
4.0 years ago
shepherl
3.4k
0
votes
0
replies
693
views
News:
DEADLINE: All packages to pass R CMD build and R CMD check
release
software
experimentdata
workflows
News
4.8 years ago
shepherl
3.4k
0
votes
0
replies
753
views
How to load additional data from fcs files
fcs
concentration
experimentdata
5.8 years ago
jurg.spaak
• 0
0
votes
1
reply
1.1k
views
Extract the gate in the data file (fcs file) from MoFlo Astrios
gate
cytometry
experimentdata
stategy
MoFlo Astrios
6.0 years ago
cr
• 0
1
vote
2
replies
863
views
Submitting an experimental data package
submit package
experimentdata
updated 6.9 years ago by
Martin Morgan
25k • written 6.9 years ago by
mark.dunning
• 0
1
vote
3
replies
1.1k
views
How to update the data in an experimental data package
experimentdata
update
updated 8.4 years ago by
Laurent Gatto
1.6k • written 8.4 years ago by
paul.theodor.pyl
▴ 10
0
votes
2
replies
2.4k
views
Biobase - Error: ExpressionSet
Microarray
Annotation
GO
ExperimentData
Biobase
Microarray
Annotation
GO
ExperimentData
updated 9.3 years ago by
Laurent Gatto
1.6k • written 9.3 years ago by
Lisa Cohen
▴ 50
0
votes
4
replies
8.1k
views
Error while building ExpressionSet from scratch....
ExperimentData
LMGene
ExperimentData
LMGene
updated 11.2 years ago by
Martin Morgan
25k • written 11.2 years ago by
Bas Jansen
▴ 150
0
votes
1
reply
957
views
justRMA {affy} error
Annotation
ExperimentData
cdf
Annotation
ExperimentData
cdf
updated 11.4 years ago by
Martin Morgan
25k • written 11.4 years ago by
Julio Alejandro Di Rienzo
▴ 10
0
votes
2
replies
1.4k
views
RMA implemented in oligo package vs affy package
ExperimentData
cdf
affy
PROcess
oligo
ExperimentData
cdf
affy
PROcess
oligo
13.9 years ago
heyi xiao
▴ 360
0
votes
0
replies
1.1k
views
Beadarray error: comparison of types not implemented
Annotation
ExperimentData
beadarray
Annotation
ExperimentData
beadarray
13.9 years ago
Anne-Kristin Stavrum
▴ 10
0
votes
0
replies
1.0k
views
Beadarray error: comparison of types not implemented
Annotation
ExperimentData
Cancer
Biobase
beadarray
Annotation
ExperimentData
Cancer
13.9 years ago
Martin Morgan
25k
0
votes
3
replies
1.2k
views
ExpressionSet or MAList
Annotation
ExperimentData
Cancer
Annotation
ExperimentData
Cancer
updated 14.8 years ago by
Gordon Smyth
47k • written 14.8 years ago by
Daniel Brewer
★ 1.9k
0
votes
2
replies
1.2k
views
ReadAffy fails 64bit linux Error in .nextMethod(e1, e2) :
Annotation
ExperimentData
cdf
affy
Annotation
ExperimentData
cdf
affy
updated 14.9 years ago by
James W. MacDonald
62k • written 14.9 years ago by
Langdon W B
▴ 20
0
votes
3
replies
1.6k
views
ReadAffy Error
Annotation
ExperimentData
cdf
affy
affyio
Annotation
ExperimentData
cdf
affy
affyio
updated 15.4 years ago by
Sylvia.Merk@ukmuenster.de
▴ 60 • written 15.4 years ago by
Markus Schmidberger
▴ 380
0
votes
6
replies
2.7k
views
how to convert a AffyBatch into ExpressionSet object ?
Annotation
GO
Survival
ExperimentData
cdf
DynDoc
genefilter
geneplotter
multtest
affy
GO
updated 15.5 years ago by
Weiyin Zhou
▴ 220 • written 15.5 years ago by
Jenny Drnevich
★ 2.2k
0
votes
0
replies
1.4k
views
how to convert a AffyBatch into ExpressionSet object ?
Annotation
GO
Survival
ExperimentData
cdf
DynDoc
genefilter
geneplotter
multtest
affy
GO
15.5 years ago
Min Wook Kim
▴ 20
30 results • Page
1 of 1
Recent ...
Replies
Answer: struggling to create a heatmap
by
ATpoint
★ 2.1k
I am reluctant to read through that wall of code. Here is what would work. Note that prefiltering makes sense before, not after running `DE…
Answer: collapseReplicates error after tximeta
by
Michael Love
39k
The issue is that `collapseReplicates` just collapses `counts` and doesn't account for multiple assays which you need for e.g. Swish or oth…
Comment: Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it
by
ATpoint
★ 2.1k
That having said, I recommend to inspect the MA-plots (`plotMA()`), at best the ones produced right from `res <- results(dds); plotMA(res)`…
Answer: Which genes are outliers in DESeq2?
by
ATpoint
★ 2.1k
You can take over some of the lines from `results()` to find them easily: ```r suppressPackageStartupMessages(library(DESeq2)) set.s…
Answer: Which genes are outliers in DESeq2?
by
Michael Love
39k
Outliers will have high maxCooks values in `mcols(dds)` -- the threshold is `qf(.99, p, n - p)` where n is sample size and p is number of c…
Votes
Significant reporter activity with mpralm function
Answer: I cannot install annotables package in Rstudio (macOS)
Answer: log2 of normalized counts for further analyzes
Answer: Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it
Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it should *not* be used
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