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dese
•
reset
2
votes
2
replies
550
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Why is the inclusion of RUVs not reflected in the EDA plots produced from normalised counts extracted from deseq2?
RUVSeq
DESeq2
dese
6 months ago
BioinfGuru
▴ 70
0
votes
1
reply
389
views
collapseReplicates dimension error
DESeq2
Dese
updated 10 months ago by
Michael Love
43k • written 11 months ago by
Léa
• 0
0
votes
3
replies
564
views
DESeq2 Results in Different Pvalue & Log2FC using the same code and data
DESeq2
dese
written 12 months ago by
Xu
• 0
0
votes
2
replies
574
views
Cross-species analysis using DESeq2 - size factor computation
dese
DESeq2
12 months ago
pl23
• 0
0
votes
2
replies
866
views
Linear Model Fitting and Colinearity
dese
DESeq2
14 months ago
Hugo
• 0
0
votes
5
replies
1.1k
views
DESeq2 analysis
DESe
DESeq2
19 months ago • updated 18 months ago
Adèle
• 0
0
votes
2
replies
1.8k
views
Handling NA's in Deseq2
Dese
DESeq2
20 months ago
Asger Mølgaard
• 0
2
votes
17
replies
2.6k
views
lfcshrink error DESeq2
DESeq2
lfcshrink
DESe
updated 21 months ago by
Michael Love
43k • written 21 months ago by
Alina
• 0
4
votes
5
replies
1.8k
views
Adding cell population estimates as a covariate in DESeq2 differential gene expression analysis
DESeq2
Dese
DifferentialRegulation
differe
updated 8 months ago by
ij283
• 0 • written 22 months ago by
Bernardo
▴ 10
3
votes
3
replies
1.1k
views
Merging two plated in R
dese
DESeq2
updated 2.7 years ago by
James W. MacDonald
68k • written 2.7 years ago by
lmrogers34
▴ 10
0
votes
5
replies
4.1k
views
Error in DESeqDataSet(se, design = design, ignoreRank) : all variables in design formula must be columns in colData
DESE
DESeq2
updated 2.8 years ago by
Basti
▴ 780 • written 2.8 years ago by
Maryam.sed1400
• 0
1
vote
3
replies
1.7k
views
ERROR: unable to find an inherited method for function ‘dispersions<-’ for signature ‘"DESeqDataSet",
DESeq2
dese
3.1 years ago
aedavids
▴ 20
0
votes
2
replies
1.1k
views
DESeq2 ratio of ratios and p-value
DESeq2
dese
3.3 years ago
wilfried.guiblet
• 0
0
votes
2
replies
801
views
where the gene is overexpressed and down regulated while doing DESeq2 analysis
DESe
DESeq2
updated 3.3 years ago by
Michael Love
43k • written 3.3 years ago by
Dinesh
• 0
2
votes
3
replies
1.2k
views
Single sided P-value for DESeq2 Likelihood Ratio Test
DESeq2
DESe
updated 4.0 years ago by
Michael Love
43k • written 4.0 years ago by
glennli
• 0
0
votes
2
replies
1.1k
views
Effect of within-group variation on gene expression analysis
DESeq2
updated 4.2 years ago by
Michael Love
43k • written 4.2 years ago by
hpapoli
• 0
16 results • Page
1 of 1
Recent ...
Replies
Answer: Automatically install dependencies
by
ATpoint
★ 4.7k
The BiocManager, which is sort of an extended wrapper around `install.packages`, installs all R dependencies. If you see errors then this i…
Answer: To count or not to count multi-overlapping reads?
by
Gordon Smyth
52k
> How does it handle reads that map to a gene that is located in a region that also has another gene but on the alternate strand? Overlapp…
Comment: Weird p-values using DESeq2?
by
ATpoint
★ 4.7k
This does not look like normalized counts but raw counts. Consider using `counts(dds, normalized = TRUE)` or the output of `normTransform()…
Answer: Weird p-values using DESeq2?
by
Wolfgang Huber
★ 13k
Dear Ingrid, thank you for asking. Can you provide the input count matrix (you can "pseudonymize" the biological conditions and the gene n…
Comment: How to visualize these pathways using pathview
by
ingrid.h
• 0
Yes I have seen it, thanks.
Votes
A: Fraction count for multi mapping reads; how to generate input file for Deseq2 fo
Comment: Weird p-values using DESeq2?
Comment: Overcoming confounding in batch effect correction
Answer: Store Matrix in DataFrame Cell
Answer: enrichGOgradient color change
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