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a4
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2.8k
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BIRD 2008
Genetics
Pathways
Cancer
PROcess
microRNA
a4
Genetics
Pathways
Cancer
PROcess
microRNA
16.5 years ago
Prof. Roland Wagner
▴ 100
0
votes
2
replies
1.5k
views
read.ilmn function query
probe
limma
a4
probe
limma
a4
updated 12.8 years ago by
Gordon Smyth
50k • written 12.8 years ago by
Natasha
▴ 440
0
votes
0
replies
1.0k
views
HTqPCR, changeCtLayout is mislabeling the rows and is unable to return a qPCRset object
a4
a4
11.3 years ago
Guest User
★ 13k
0
votes
1
reply
1.0k
views
calcNormFactors gives me NaN
RNASeq
edgeR
a4
RNASeq
edgeR
a4
updated 10.4 years ago by
Ryan C. Thompson
★ 7.9k • written 10.4 years ago by
Guest User
★ 13k
0
votes
0
replies
970
views
Design question in LIMMA
Normalization
limma
a4
Normalization
limma
a4
18.5 years ago
Nataliya Yeremenko
▴ 100
0
votes
0
replies
908
views
technical replicates (different subset repeated on different print runs within experiment)
a4
a4
18.6 years ago
Margaret Gardiner-Garden
▴ 160
0
votes
0
replies
948
views
Design question in LIMMA
Normalization
limma
a4
Normalization
limma
a4
18.5 years ago
Gordon Smyth
50k
0
votes
3
replies
1.8k
views
"scale to fit" plot for A4 pdf
Cancer
a4
Cancer
a4
updated 17.1 years ago by
James W. MacDonald
65k • written 17.1 years ago by
Daniel Brewer
★ 1.9k
0
votes
5
replies
1.8k
views
Extremely low p-values in limma
limma
a4
limma
a4
updated 16.6 years ago by
Naomi Altman
★ 6.0k • written 16.6 years ago by
Pie Muller
▴ 110
0
votes
0
replies
785
views
Make a "subset" back
Normalization
GO
a4
Normalization
GO
a4
15.6 years ago
pchristoph@gmail.com
▴ 20
0
votes
2
replies
1.2k
views
biological reps and dye-swaps and duplicate spots in a common reference design
Yeast
limma
a4
Yeast
limma
a4
updated 15.5 years ago by
Jenny Drnevich
★ 2.0k • written 15.5 years ago by
sylvie pinloche
▴ 10
0
votes
1
reply
1.3k
views
maSigPro error in getting a design matrix
maSigPro
a4
maSigPro
a4
14.5 years ago
lohith madireddy
▴ 40
0
votes
0
replies
1.2k
views
maSigPro - NA values for coefficient estimates - Is a polynomical fit recommended for my data?
limma
maSigPro
a4
limma
maSigPro
a4
14.5 years ago
jeremy wilson
▴ 150
0
votes
1
reply
1.3k
views
Fwd: maSigPro - NA values for coefficient estimates - Is a polynomical fit recommended for my data?
Annotation
limma
maSigPro
a4
Annotation
limma
maSigPro
a4
updated 14.5 years ago by
jeremy wilson
▴ 150 • written 14.5 years ago by
Ana Conesa
▴ 340
0
votes
3
replies
1.3k
views
LIMMA experimental design affecting modelmatrix
Microarray
limma
a4
Microarray
limma
a4
updated 14.4 years ago by
James W. MacDonald
65k • written 14.4 years ago by
Aubin-Horth Nadia
▴ 60
0
votes
1
reply
1.4k
views
HTqPCR - how to read data file with multiple samples
HTqPCR
a4
HTqPCR
a4
updated 14.2 years ago by
Heidi Dvinge
★ 2.0k • written 14.2 years ago by
marco fabbri
▴ 320
0
votes
0
replies
1.1k
views
Limma analysis questions
limma
a4
limma
a4
12.6 years ago
Martin Janssen
▴ 10
0
votes
2
replies
1.2k
views
Problems normalizing scanarray express data with limma
GUI
limma
a4
GUI
limma
a4
updated 12.3 years ago by
Gordon Smyth
50k • written 12.3 years ago by
Matthew Ouellette
▴ 10
0
votes
1
reply
742
views
Bioconductor IT Security polici
a4
a4
updated 11.9 years ago by
Martin Morgan
25k • written 11.9 years ago by
Guest User
★ 13k
0
votes
0
replies
989
views
DiffBind error with DBA_DESEQ_GLM and warning with DBA_EDGE_GLM
a4
DiffBind
a4
DiffBind
11.8 years ago
Elisabetta Manduchi
▴ 160
0
votes
0
replies
1.5k
views
Biorad iCycler cfx manager files and HTqPCR
Microarray
qPCR
HTqPCR
a4
Microarray
qPCR
HTqPCR
a4
11.2 years ago
b1gorsuch@comcast.net
▴ 20
0
votes
1
reply
1.2k
views
calcNormFactors gives NaN normalization values- Please Help!
Normalization
a4
Normalization
a4
updated 10.4 years ago by
Mark Robinson
▴ 880 • written 10.4 years ago by
Guest User
★ 13k
0
votes
1
reply
3.3k
views
maSigPro help- p. vector error
RNASeq
maSigPro
a4
RNASeq
maSigPro
a4
updated 8.5 years ago by
Mª José Nueda
▴ 90 • written 10.2 years ago by
Guest User
★ 13k
23 results • Page
1 of 1
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Replies
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
by
James W. MacDonald
65k
You cannot correct for technical variability due to batch if samples are nested in batch. The technical and biological differences are comp…
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
James W. MacDonald
65k
You will need to show some reproducible code for anybody to track this down. Please note that `DESeq2` has been used by thousands of people…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
by
Alexandre
• 0
My code for the sessionInfo() . If the pictures are too big, I will downsize them. THank you again for reading my post ! ```r > sessionInf…
Comment: Reproducibility issue with scran together with lapply and BiocParallel
by
ATpoint
★ 4.0k
Thanks Aaron for the response. RNGseed (for me) has no effect. I actually stumbled over this in one of my analysis where I have a constant …
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
winwater0928
• 0
Thank you for your comment! 1)"Your contrast is comparing LGR5 to Homeostasis." means (Lgr5)/(Homeostasis). Is it right? Then, I think if…
Votes
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq
C: null model and DEXSeqDataSet object in DEXSEQ
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
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