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fdr
•
reset
40
votes
44
replies
10k
views
Are published RNA seq data analyses often wrong in calculating p-values and FDR?
FDR
p-value
DESeq
RNA-Seq
updated 6.4 years ago by
Wade Davis
▴ 60 • written 6.9 years ago by
yjiangnan
▴ 10
2
votes
15
replies
3.0k
views
BiSeq trimClusters FDR.loc confusion
biseq
fdr
data
results
9.0 years ago • updated 8.9 years ago
mnaymik
▴ 10
2
votes
12
replies
1.6k
views
msmsTests, NA values in test.results output
Proteomics
msmstests
FDR
updated 5.5 years ago by
Laurent Gatto
1.6k • written 5.5 years ago by
laural710
• 0
67
votes
8
replies
55k
views
conceptual question about FDR, FDR adjusted p-value and q-value
fdr
qvalue
updated 7.6 years ago by
Gordon Smyth
50k • written 11.4 years ago by
Jack Luo
▴ 440
4
votes
6
replies
1.3k
views
Question about the usage of Package, qvalue
statistical significance
p-value
q-value
FDR
qvalue
4.3 years ago
manozawa
▴ 10
0
votes
6
replies
1.5k
views
Defining subsets for FDR correction
fdr
deseq2
ihw
updated 5.9 years ago by
Michael Love
41k • written 5.9 years ago by
sven.schenk
▴ 20
2
votes
5
replies
3.1k
views
Limma toptable interpretation check
limma
microarray
fdr
p-value
results
updated 6.9 years ago by
Aaron Lun
★ 28k • written 6.9 years ago by
bhgyu
▴ 30
3
votes
5
replies
1.8k
views
help! new to R! Detection p value cut off
p values
microarray
FDR
9.1 years ago
a
• 0
1
vote
5
replies
3.1k
views
Inspection and Correction of p-values in DESeq2 pipeline by Bernd
deseq2
FDR
fdrtool
updated 7.1 years ago by
Bernd Klaus
▴ 610 • written 7.1 years ago by
deena
▴ 20
1
vote
4
replies
2.5k
views
strange FDR distribution for RNA-seq sample with edgeR
edgeR
RNA-seq
FDR
updated 9.4 years ago by
Gordon Smyth
50k • written 9.4 years ago by
OLIVER, DAVID
▴ 10
3
votes
4
replies
2.1k
views
Does Fold change cutoff changes the FDR value using glmTreat function in edgeR?
edgeR
r
bioconductor
diffferential expression
fdr
updated 5.8 years ago by
James W. MacDonald
65k • written 5.8 years ago by
Biologist
▴ 110
10
votes
3
replies
8.9k
views
Volcanoplot with limma - RAW P-values or Adj.P-Values
volcanoplot
limma
fdr
6.8 years ago • updated 3.4 years ago
tcalvo
▴ 90
2
votes
2
replies
1.3k
views
fdr score for degs
fdr
deg
updated 7.0 years ago by
svlachavas
▴ 830 • written 7.0 years ago by
nia
▴ 30
2
votes
2
replies
7.7k
views
edgeR: How is FDR calculated for logFC? (False Discovery Rate)
edgeR
bioconductor
fdr
statistics
differential gene expression
7.4 years ago
jol.espinoz
▴ 40
3
votes
2
replies
4.6k
views
p.adjust function fdr and BH
fdr
BH
updated 5.8 years ago by
Gordon Smyth
50k • written 5.8 years ago by
zhang.jianhai
▴ 10
0
votes
2
replies
1.6k
views
DESeq with hierarchical FDR correction
deseq2
fdr
updated 8.7 years ago by
Michael Love
41k • written 8.7 years ago by
liam.philip.shaw
• 0
1
vote
2
replies
1.8k
views
FDR and mixed FDR in limma fry()
limma
FDR
updated 4.9 years ago by
Gordon Smyth
50k • written 4.9 years ago by
Regeroka
• 0
2
votes
2
replies
2.8k
views
How adjusted p-values are calculated in limma
limma
r
transcriptomics
FDR
statistics
updated 4.6 years ago by
Gordon Smyth
50k • written 4.6 years ago by
Wuschel
▴ 10
7
votes
2
replies
1.9k
views
False discovery rates in DEP
p-value
FDR
DEP
updated 2.8 years ago by
António Miguel de Jesus Domingues
▴ 490 • written 3.4 years ago by
Alexei Leliavski
▴ 60
0
votes
1
reply
1.1k
views
Dependence of FDR and P-values on sample size
edgeR
FDR
p-value
Benjamini-Hochberg
Differential Analysis
updated 5.1 years ago by
Aaron Lun
★ 28k • written 5.1 years ago by
ilovesuperheroes1993
• 0
0
votes
1
reply
1.0k
views
EdgeR dispersion and FDR
edger
FDR
rnaseq
updated 6.8 years ago by
Aaron Lun
★ 28k • written 6.8 years ago by
dsarbashis
• 0
0
votes
1
reply
1.4k
views
Change the FDR in DEXSeq
FDR
padj
updated 7.5 years ago by
Jakub
▴ 50 • written 7.5 years ago by
arom2
• 0
1
vote
1
reply
1.5k
views
Question about testing main factors and doing FDR correction in a multiple-factor design in DESeq2.
deseq2
multiple factor design
FDR
fdrtool
updated 7.2 years ago by
Michael Love
41k • written 7.2 years ago by
marieke
• 0
0
votes
1
reply
1.2k
views
FUNCTIONAL ENRICHMENT ANALYSIS
genecodis3
fdr
updated 7.0 years ago by
Robert Castelo
★ 3.3k • written 7.0 years ago by
nia
▴ 30
1
vote
1
reply
778
views
Weird distribution of p-values, with no significant adjusted p-values?
fdr
limmaGUI
p-values
limma
updated 18 months ago by
James W. MacDonald
65k • written 18 months ago by
seahorsebox828
• 0
25 results • Page
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Recent ...
Replies
Comment: DESeq2 output used for PCA plot on R studio
by
Aaliya
• 0
How am i making the data? I am using the DESeq2 output data which I had generated
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq
by
Michael Love
41k
Sounds reasonable. For ranking genes, you could choose those with low decay rate but removing thoses where it is indistinguishable from …
Answer: Citation for edgeR user guide
by
Gordon Smyth
50k
Thanks for thinking about how to cite edgeR. Citations are indeed the main way by which the edgeR authors get credit for their work. The Us…
Comment: DESeq2 output used for PCA plot on R studio
by
swbarnes2
★ 1.3k
You are just making up data? What is the point of this exercise?
Comment: How to retrieve gene ontology GO class?
by
James W. MacDonald
65k
What do you mean by 'the information'? Do you have things in particular that you want?
Votes
Answer: Citation for edgeR user guide
Use of negative binomial model for exponential decay rate estimation using DESeq (or similar)
Answer: How to correct for age, sex, etc. from an RNA-seq data in DESeq2.
Answer: minfi::read.metharray.exp
Comment: Trying to use enrichGO
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