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p-value
•
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0
votes
0
replies
754
views
DEqMS function "outputResult" reports wrong sca.adj.pval
outputresult
DEqMS
sca.adj.pval
error
p-value
2.2 years ago
Bastian
• 0
0
votes
1
reply
1.2k
views
What does one-sided p-value in DESeq2 mean in biological terms?
one-sided
nbinomWaldTest
p-value
meta-analysis
DESeq2
updated 3.3 years ago by
Michael Love
43k • written 3.3 years ago by
nash12
• 0
1
vote
2
replies
4.8k
views
Why are my p-values deflated (GWAS)?
gwas
genesis
p-value
q-q-plot
updated 3.9 years ago by
Anna
• 0 • written 5.1 years ago by
solanum
• 0
7
votes
2
replies
2.4k
views
False discovery rates in DEP
p-value
FDR
DEP
updated 3.5 years ago by
António Miguel de Jesus Domingues
▴ 510 • written 4.1 years ago by
Alexei Leliavski
▴ 60
4
votes
6
replies
1.8k
views
Question about the usage of Package, qvalue
statistical significance
p-value
q-value
FDR
qvalue
5.0 years ago
manozawa
▴ 10
1
vote
2
replies
1.1k
views
IHW scale of problem
ihw
p-value
multiple hypothesis
updated 5.5 years ago by
Wolfgang Huber
★ 13k • written 5.6 years ago by
xiaotong.yao23
▴ 10
0
votes
1
reply
1.6k
views
Dependence of FDR and P-values on sample size
edgeR
FDR
p-value
Benjamini-Hochberg
Differential Analysis
updated 5.8 years ago by
Aaron Lun
★ 28k • written 5.8 years ago by
ilovesuperheroes1993
• 0
3
votes
12
replies
2.0k
views
Why did I get NA p-values in DESeq with continuous variable?
deseq2
p-value
continuous
deseq
5.9 years ago
ariel
▴ 20
2
votes
2
replies
2.3k
views
One-sided p-value from DESeq2
DESeq2
nbinomWaldTest
one-sided
p-value
updated 6.3 years ago by
Michael Love
43k • written 6.3 years ago by
t.kuilman
▴ 170
0
votes
0
replies
1.2k
views
Question: Problem for getting P-Value in Module-Trait Relationship in WGCNA
weighted correlation network analysis
WGCNA
P-Value
6.4 years ago
modarzi
▴ 10
41
votes
44
replies
12k
views
Are published RNA seq data analyses often wrong in calculating p-values and FDR?
FDR
p-value
DESeq
RNA-Seq
updated 7.0 years ago by
Wade Davis
▴ 60 • written 7.6 years ago by
yjiangnan
▴ 10
0
votes
0
replies
1.1k
views
Question: Enrichment heatmap - GOstats package of R
Gostats
p-value
7.5 years ago
salamandra
▴ 20
5
votes
6
replies
1.7k
views
pvalue of deseq2
deseq2
normalization
p-value
metaseq
updated 7.5 years ago by
Ryan C. Thompson
★ 7.9k • written 7.5 years ago by
ed_isfahani
• 0
2
votes
5
replies
3.8k
views
Limma toptable interpretation check
limma
microarray
fdr
p-value
results
updated 7.6 years ago by
Aaron Lun
★ 28k • written 7.6 years ago by
bhgyu
▴ 30
2
votes
1
reply
2.3k
views
DiffBind dba.analyze() to return all differentially enriched peaks?
diffbind
p-value
differential binding analysis
fold enrichment values using diffbind
updated 8.5 years ago by
Rory Stark
★ 5.2k • written 8.6 years ago by
alisonhanh.nguyen
• 0
10
votes
14
replies
14k
views
how DESeq calculates p-value ?
deseq
differential gene expression
statistics
p-value
updated 3.8 years ago by
Kai_Qi
▴ 20 • written 8.9 years ago by
Giard
▴ 30
11
votes
20
replies
4.8k
views
Detection p-value: difference between limma and lumi packages
p-value
detection
updated 8.9 years ago by
Gordon Smyth
52k • written 8.9 years ago by
Eleni Christodoulou
▴ 150
5
votes
2
replies
2.6k
views
RankProd: Why are p-values=0?
rankprod
p-value
updated 9.5 years ago by
James W. MacDonald
67k • written 9.5 years ago by
brilladine
• 0
1
vote
2
replies
2.4k
views
MEDIPS vs MACS: why does MEDIPS generate more conservative p-values
p-value
medips
MACS
updated 9.6 years ago by
Lukas Chavez
▴ 570 • written 9.6 years ago by
tptacek3050
• 0
19 results • Page
1 of 1
Recent ...
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Answer: DESeq error: counts matrix should be numeric, currently it has mode: character
by
ATpoint
★ 4.6k
R thinks your data are characters (e.g. "1", "2", instead of 1, 2) so given that your `counts_data` indeed only contains counts, do: `mo…
Comment: Any tools to convert .gff to .gtf format
by
ControlF5
• 0
Yes, the Appsierra team recently built a tool to convert .gff to .gtf format. [ControlF5][1] is providing the best software testing service…
Comment: EuroBioC2024 abstract submission is open!
by
Alan Downey
• 0
EuroBioC2024 has opened its abstract submission process, presenting an exciting opportunity for researchers to contribute to groundbreaking…
Comment: ChAMP.DMR error - Error in makeGenomicRatioSetFromMatrix
by
O'Brien
• 0
Consult the ChAMP.DMR documentation for more information on supported array types and expected data formats: https://bioconductor.org/packa…
Answer: combining raw counts and estimated counts
by
O'Brien
• 0
It is possible to combine raw counts from TCGA and estimated counts from GEO datasets (Kalisto pseudoalignment) while mitigating batch effe…
Votes
A: GWAS analysis with Illumina HumanOmni5-4 BeadChip - recommended software and wor
A: GWAS analysis with Illumina HumanOmni5-4 BeadChip - recommended software and wor
A: RNA-seq Normalisation - normalise all samples in experiment or only the ones use
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio
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