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fdr
•
reset
2
votes
15
replies
3.0k
views
BiSeq trimClusters FDR.loc confusion
biseq
fdr
data
results
9.1 years ago • updated 9.0 years ago
mnaymik
▴ 10
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
41
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 7.0 years ago by
yjiangnan
▴ 10
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
10
votes
3
replies
9.1k
views
Volcanoplot with limma - RAW P-values or Adj.P-Values
volcanoplot
limma
fdr
6.8 years ago • updated 3.5 years ago
tcalvo
▴ 90
1
vote
5
replies
3.1k
views
Inspection and Correction of p-values in DESeq2 pipeline by Bernd
deseq2
FDR
fdrtool
updated 7.2 years ago by
Bernd Klaus
▴ 610 • written 7.2 years ago by
deena
▴ 20
3
votes
5
replies
1.9k
views
help! new to R! Detection p value cut off
p values
microarray
FDR
9.2 years ago
a
• 0
2
votes
5
replies
3.2k
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
0
votes
1
reply
1.1k
views
EdgeR dispersion and FDR
edger
FDR
rnaseq
updated 6.9 years ago by
Aaron Lun
★ 28k • written 6.9 years ago by
dsarbashis
• 0
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
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 5.9 years ago by
James W. MacDonald
65k • written 5.9 years ago by
Biologist
▴ 110
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
2
votes
12
replies
1.7k
views
msmsTests, NA values in test.results output
Proteomics
msmstests
FDR
updated 5.6 years ago by
Laurent Gatto
1.6k • written 5.6 years ago by
laural710
• 0
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 5.2 years ago by
Aaron Lun
★ 28k • written 5.2 years ago by
ilovesuperheroes1993
• 0
1
vote
2
replies
1.9k
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
2.9k
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
4
votes
6
replies
1.4k
views
Question about the usage of Package, qvalue
statistical significance
p-value
q-value
FDR
qvalue
4.3 years ago
manozawa
▴ 10
1
vote
1
reply
791
views
Weird distribution of p-values, with no significant adjusted p-values?
fdr
limmaGUI
p-values
limma
updated 19 months ago by
James W. MacDonald
65k • written 19 months ago by
seahorsebox828
• 0
0
votes
2
replies
1.7k
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
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
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
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
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
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
7
votes
2
replies
2.0k
views
False discovery rates in DEP
p-value
FDR
DEP
updated 2.9 years ago by
António Miguel de Jesus Domingues
▴ 510 • written 3.4 years ago by
Alexei Leliavski
▴ 60
25 results • Page
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Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
I looked into the genomic distributions. Please see the screenshot attatched ![ distrubution for female loci, boot1 and boot2][1] how do …
Answer: How to save the DEXSeq results
by
Michael Love
41k
If you look at the output here: https://bioconductor.org/packages/release/bioc/vignettes/DEXSeq/inst/doc/DEXSeq.html#4_Testing_for_differe…
Answer: Method to find pathways different between 2 groups
by
Robert Castelo
★ 3.3k
Hi, regarding how could you combine the result from each tool, one option is using a so-called "ensembl method", for instance, the package …
Answer: Couldn't connect to server while using "pathways"
by
James W. MacDonald
65k
As ATpoint already noted, you should proceed from the assumption that your audience knows nothing about what you are doing, and provide eno…
Answer: Trim/Filter out-of-bounds GRanges
by
Michael Love
41k
https://support.bioconductor.org/p/73432/#73448
Votes
Answer: Method to find pathways different between 2 groups
Answer: Method to find pathways different between 2 groups
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Answer: Method to find pathways different between 2 groups
Comment: Trying to use enrichGO
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