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pvalue
•
reset
0
votes
2
replies
255
views
RNA-Seq p value range variation
DESeq2
pvalue
RNA-Seq
5 weeks ago
paul.meraner
• 0
1
vote
12
replies
1.6k
views
How to calculate p value when comparing two sets of DEGs and not applying interaction
DEGcomparison
DESeq2
InteractionSet
pvalue
8 months ago
paria.alipour
• 0
0
votes
0
replies
665
views
How to extract P-Values and LogFC from lrTest in MAST?
pvalue
logFC
lrtest
MAST
19 months ago
Tadeoye
▴ 20
0
votes
1
reply
1.6k
views
values (NA) in p value Deseq2 (reopen)
pvalue
NA
R
DESeq2
updated 3.0 years ago by
ATpoint
★ 4.5k • written 3.0 years ago by
Johan Largo
• 0
1
vote
2
replies
1.0k
views
How to understand the P-value generated by DEseq2
pValue
updated 3.5 years ago by
Michael Love
42k • written 3.6 years ago by
Kai_Qi
▴ 20
0
votes
6
replies
1.9k
views
DEXSeq dispersion outlier
DEXSeq
dispersion
pvalue
5.5 years ago
fiona.dick91
▴ 60
1
vote
6
replies
1.8k
views
Zero pvalues after lfcShrink of DESeq2 package
deseq2
pvalue
lfcshrink
updated 5.6 years ago by
Michael Love
42k • written 5.6 years ago by
peibo_xu
▴ 10
1
vote
5
replies
2.9k
views
Why the p value and logFC calculated by limma is so small
limma
volcanoplot
pvalue
logFC
updated 5.7 years ago by
Gordon Smyth
51k • written 5.7 years ago by
xingxd16
▴ 20
0
votes
9
replies
14k
views
How to generate a volcano plot when p-values from DESeq2 are zero?
deseq2
pvalue
visualization
enhancedvolcano
rnaseq
written 5.8 years ago by
ricardo3889
• 0
4
votes
7
replies
2.8k
views
edgeR DEG glmQLFTest
glmQLFTest
pvalue
updated 5.8 years ago by
Gordon Smyth
51k • written 5.8 years ago by
zhang.jianhai
▴ 10
0
votes
3
replies
1.0k
views
p-values smaller than machine epsilon in DESeq2
deseq2
pvalue
updated 6.0 years ago by
Michael Love
42k • written 6.0 years ago by
oscarf
• 0
9
votes
5
replies
5.0k
views
Finding DE genes from RNA-seq data
edgeR
pvalue
qvalue
fpkm
differential gene expression
updated 6.1 years ago by
Steve Lianoglou
★ 13k • written 6.1 years ago by
Harrisonesmith
• 0
4
votes
4
replies
2.0k
views
What doest this p.value distribution mean?
deseq2
pvalue
updated 6.4 years ago by
Michael Love
42k • written 6.4 years ago by
chipolino
• 0
1
vote
1
reply
1.4k
views
fdrtool corrected p-value histograms look weird
pvalue
adjusted pvalue
fdrtool
updated 6.7 years ago by
Michael Love
42k • written 6.7 years ago by
hele7
▴ 20
2
votes
2
replies
2.3k
views
How to control p-value inflation with limma
limma
pvalue
inflation
bacon
updated 7.7 years ago by
Aaron Lun
★ 28k • written 7.7 years ago by
stephane.cauchi
▴ 10
1
vote
1
reply
3.2k
views
Q value obtained from QValue package is lower than P value?
qvalue
pvalue
r
multiple comparisons
updated 7.8 years ago by
Storey, John D.
▴ 100 • written 7.8 years ago by
tombernardryan
▴ 60
0
votes
1
reply
1.4k
views
meta analysis of clc output(differential expression data )
rnaseq
metaseq
clc output
pvalue
meta analysis
updated 7.9 years ago by
Koki
▴ 10 • written 7.9 years ago by
hassangiahi
• 0
2
votes
10
replies
10k
views
adjusted p-values and p-values problems!
pvalue
adjusted pvalue
r
bonferroni
rna-seq
updated 8.1 years ago by
Michael Love
42k • written 8.1 years ago by
fromhj304
▴ 10
2
votes
4
replies
1.3k
views
ResrtingTools include pvalue NA
reportingtools
deseq2
NA
pvalue
updated 8.4 years ago by
Michael Love
42k • written 8.4 years ago by
NMostajo
▴ 10
0
votes
8
replies
1.9k
views
ReportingTools include pvalue NA and comparissons
R
reportingtools
deseq2
pvalue
coef
updated 8.4 years ago by
Michael Love
42k • written 8.4 years ago by
NMostajo
▴ 10
4
votes
1
reply
2.1k
views
Very low EdgeR Pvalues with very small sample size
edger
pvalue
sample size
updated 8.4 years ago by
Aaron Lun
★ 28k • written 8.4 years ago by
Venu Pullabhatla
▴ 40
6
votes
8
replies
6.4k
views
Does limma calculate pvalues using log2 fold changes or with linear values?
limma
pvalue
log2fc
log2
updated 24 months ago by
James W. MacDonald
67k • written 8.6 years ago by
serpalma.v
▴ 60
7
votes
11
replies
4.0k
views
t-statistic cutoff for finding DMRs with bsseq
bsseq
dmr
ttest
pvalue
updated 8.8 years ago by
James W. MacDonald
67k • written 8.8 years ago by
enricoferrero
▴ 660
1
vote
2
replies
1.6k
views
Cannot re-create q-values from the p-values in the DiffTable.
cummeRbund
pvalue
adjusted pvalue
qvalue
updated 8.8 years ago by
James W. MacDonald
67k • written 8.8 years ago by
Sameet Mehta
▴ 30
0
votes
0
replies
1.2k
views
pvalRRHO() does not compute the p-value
RRHO
rank
pvalue
9.2 years ago
aurelien
▴ 10
1
vote
3
replies
1.9k
views
confusing output from EdgeR Glm
edger
logfc
pvalue
updated 9.2 years ago by
Aaron Lun
★ 28k • written 9.2 years ago by
amoltej
▴ 10
4
votes
5
replies
3.1k
views
Is it sensable to use p-value detection in illumina bead array as present, absent or marginal call
illumina
pvalue
updated 9.4 years ago by
svlachavas
▴ 830 • written 9.4 years ago by
Agaz Hussain Wani
▴ 260
27 results • Page
1 of 1
Recent ...
Replies
Comment: Appropriate ways to filter counts data for voom/limma
by
dorothylminter
• 0
The proper way to filter count data for voom/limma emphasizes the importance of choosing the right filtering technique to enhance detection…
Comment: How to extract phastcons score for all protein coding genes and lncRNAs using Ge
by
Robert Castelo
★ 3.4k
Hi, this is a long comment thread on 4-year old post, please open a new post with you question. To increase the odds of getting useful answ…
Comment: DESeq2 rerun returns different results
by
ATpoint
★ 4.5k
DESeq2 is deterministic if you use same input, code and software versions. Make sure to version-control your environment by at least tracki…
Answer: [How to construct a model.matrix ]
by
Gordon Smyth
51k
> Initially, I simply used > `lm(Epigenetic_age ~ Age_group + Age + Sex + PC1 + PC2 + PC3 + PC4 + PC5 + B + CD4T + CD8T + Mono + NK + Neutr…
Comment: How to extract phastcons score for all protein coding genes and lncRNAs using Ge
by
rania.alanany
• 0
Hi Robert, Thank you for the explanation, But I am still little bit confused, Is the annotation package (TxDb.Hsapiens.UCSC.hg38.knownGene)…
Votes
A: Some questions for remove batch effect by using mnnCorrect
A: Recommendations for combining multiple 10x runs into one SingleCellExperiment
Answer: [How to construct a model.matrix ]
Answer: Handling biological replicates in DESeq2
Comment: biomaRt rnorvegicus_gene_ensembl not available anymore
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Robert Castelo
★ 3.4k
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to
Michael Stadler
▴ 350
Scholar
to
ATpoint
★ 4.5k
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to
James W. MacDonald
67k
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to
Stefano Mangiola
▴ 20
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