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correlation
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902
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Human genes correlation to Bacterial genes
correlation
pearsoncorrelation
rna-seq
differential gene expression
updated 4 months ago by
ATpoint
★ 4.0k • written 6.0 years ago by
saad_k6
• 0
0
votes
1
reply
867
views
using WGCNA, positive or negative corrlation between genes composing modules.
correlation
wgcna
network
updated 4 months ago by
janetdelvalle056
• 0 • written 17 months ago by
pharamac
• 0
0
votes
1
reply
986
views
WGCNA correlation sign differences between eigen genes/ hub genes and clinical traits
hub
correlation
eigen
WGCNA
updated 4 months ago by
Vanatta
• 0 • written 2.4 years ago by
mairah.khan
• 0
0
votes
1
reply
809
views
Correlation between two different datasets: between results of RNAseq and absence/presence of Type3 Secretion System
RNASeq
Correlation
DESeq2
updated 20 months ago by
Michael Love
41k • written 20 months ago by
keshav.prasad.gubbi
• 0
1
vote
1
reply
1.0k
views
spearman correlation
correlation
sperarman
updated 2.6 years ago by
ATpoint
★ 4.0k • written 2.6 years ago by
info@shi
• 0
15
votes
17
replies
23k
views
WGCNA: What is `soft thresholding`?
wgcna
network analysis
network
correlation
coexpression
updated 3.4 years ago by
Lluís Revilla Sancho
▴ 730 • written 7.6 years ago by
jol.espinoz
▴ 40
4
votes
1
reply
1.5k
views
Best practice for correlating scRNA seq to bulkRNA seq data
seurat
edgeR
spearman
correlation
scRNAseq
updated 4.0 years ago by
Aaron Lun
★ 28k • written 4.0 years ago by
tobias-messmer
▴ 10
0
votes
2
replies
905
views
Correlation plot how to improve?
plot
correlation
4.5 years ago
annkolman78
• 0
4
votes
7
replies
1.3k
views
Are spurious correlations possible in correlating two DESeq2 foldchanges computed using the same reference sample group?
deseq2
correlation
5.4 years ago
Cornwell, Adam
▴ 110
0
votes
3
replies
1.2k
views
Coverage profile comparison
Targeted sequencing
correlation
coverage
euclid
clustering
5.5 years ago
faramer86
• 0
0
votes
1
reply
1.0k
views
How can I do a correlation heatmap between two groups of matrices (metabolomic and transcriptomic data)
correlation
5.8 years ago
adriana.gallego.02
▴ 20
0
votes
1
reply
1.1k
views
Differential Coexpression Analysis
differential analysis
differential gene expression
coexpression
correlation
updated 6.1 years ago by
Peter Langfelder
★ 3.0k • written 6.1 years ago by
hkarakurt
▴ 20
2
votes
1
reply
840
views
Is there any prerequisites for taking correlation in genomic data?
correlation
updated 6.2 years ago by
chris86
▴ 420 • written 6.2 years ago by
Arman Shahrisa
▴ 20
0
votes
6
replies
1.5k
views
expression correlation on an ExpressionSet
ExpressionSet
caseControl
Correlation
Plot
updated 6.9 years ago by
vulegom
• 0 • written 7.2 years ago by
DataFanatic
▴ 10
1
vote
2
replies
2.0k
views
Diffbind: how to include all the samples in the heatmap while using the contrast
diffbind
heatmap
correlation
updated 7.1 years ago by
Rory Stark
★ 5.2k • written 7.1 years ago by
a.bahraini88
• 0
7
votes
3
replies
3.1k
views
plotting correlation between samples
correlation
updated 7.1 years ago by
Aaron Lun
★ 28k • written 7.1 years ago by
teresati
▴ 10
4
votes
9
replies
3.3k
views
WGCNA | pickSoftThreshold.fromSimilarity not working for input similarity matrix
WGCNA
similarity
correlation
bioconductor
rnaseq
updated 7.2 years ago by
Peter Langfelder
★ 3.0k • written 7.2 years ago by
jol.espinoz
▴ 40
4
votes
4
replies
1.4k
views
Correlation analysis taking into account multiple correlations
edger
rna-seq
correlation
updated 7.6 years ago by
Andrew_McDavid
▴ 270 • written 7.6 years ago by
jhj89
▴ 10
2
votes
7
replies
4.6k
views
How to create "trait data" file for WGCNA
wgcna
coexpression
correlation
microarray
updated 8.2 years ago by
Peter Langfelder
★ 3.0k • written 8.2 years ago by
shalinisonar13
▴ 20
2
votes
4
replies
2.2k
views
Can DESeq correlate genes expression patterns with a numerical sample factor?
deseq2
correlation
deseq
linear
updated 8.7 years ago by
Ryan C. Thompson
★ 7.9k • written 8.7 years ago by
matt.arno
• 0
3
votes
3
replies
1.4k
views
Correlation/clustering of numeric (continuous) and categorical values
correlation
updated 9.0 years ago by
Sean Davis
21k • written 9.0 years ago by
Johannes Rainer
★ 2.0k
21 results • Page
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Comment: How to retrieve gene ontology GO class from gene list?
by
James W. MacDonald
65k
Yes. The `keys` argument to both `select` and `mapIds` will accept a vector (see `?select` for more information). Also, the [vignette][1] f…
Comment: How to retrieve gene ontology GO class from gene list?
by
bandconductor
• 0
Thanks, this is potentially a much faster way than parsing BiomRt. However, it is only returning one GO term right now (biomaRt returns a f…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
by
James W. MacDonald
65k
Both `RUVseq` and `sva` are meant to be used to remove technical variability. The problem is the identification of variability that is tech…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
by
Alexandre
• 0
Hello James, Thank you very much for your answer and taking the time to read my post. I understand your remark, but isn't the approach o…
Comment: PCA plot suggestions
by
JKim
• 0
cross post: https://www.biostars.org/p/9593486/
Votes
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
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?
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