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DESe
•
reset
4
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5
replies
2.0k
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Adding cell population estimates as a covariate in DESeq2 differential gene expression analysis
DESeq2
Dese
DifferentialRegulation
differe
updated 10 months ago by
ij283
• 0 • written 2.1 years ago by
Bernardo
▴ 10
3
votes
3
replies
1.2k
views
Merging two plated in R
dese
DESeq2
updated 2.9 years ago by
James W. MacDonald
68k • written 2.9 years ago by
lmrogers34
▴ 10
2
votes
3
replies
1.3k
views
Single sided P-value for DESeq2 Likelihood Ratio Test
DESeq2
DESe
updated 4.2 years ago by
Michael Love
43k • written 4.2 years ago by
glennli
• 0
2
votes
17
replies
2.9k
views
lfcshrink error DESeq2
DESeq2
lfcshrink
DESe
updated 23 months ago by
Michael Love
43k • written 23 months ago by
Alina
• 0
2
votes
2
replies
643
views
Why is the inclusion of RUVs not reflected in the EDA plots produced from normalised counts extracted from deseq2?
RUVSeq
DESeq2
dese
8 months ago
BioinfGuru
▴ 70
1
vote
3
replies
1.8k
views
ERROR: unable to find an inherited method for function ‘dispersions<-’ for signature ‘"DESeqDataSet",
DESeq2
dese
3.3 years ago • updated 3.2 years ago
aedavids
▴ 20
0
votes
2
replies
1.1k
views
DESeq2 ratio of ratios and p-value
DESeq2
dese
3.5 years ago
wilfried.guiblet
• 0
0
votes
2
replies
638
views
Cross-species analysis using DESeq2 - size factor computation
dese
DESeq2
15 months ago
pl23
• 0
0
votes
2
replies
940
views
Linear Model Fitting and Colinearity
dese
DESeq2
16 months ago
Hugo
• 0
0
votes
2
replies
1.1k
views
Effect of within-group variation on gene expression analysis
DESeq2
updated 4.4 years ago by
Michael Love
43k • written 4.4 years ago by
hpapoli
• 0
0
votes
3
replies
617
views
DESeq2 Results in Different Pvalue & Log2FC using the same code and data
DESeq2
dese
written 14 months ago by
Xu
• 0
0
votes
2
replies
838
views
where the gene is overexpressed and down regulated while doing DESeq2 analysis
DESe
DESeq2
updated 3.5 years ago by
Michael Love
43k • written 3.5 years ago by
Dinesh
• 0
0
votes
1
reply
445
views
collapseReplicates dimension error
DESeq2
Dese
updated 13 months ago by
Michael Love
43k • written 13 months ago by
Léa
• 0
0
votes
5
replies
4.3k
views
Error in DESeqDataSet(se, design = design, ignoreRank) : all variables in design formula must be columns in colData
DESE
DESeq2
updated 3.0 years ago by
Basti
▴ 780 • written 3.0 years ago by
Maryam.sed1400
• 0
0
votes
2
replies
2.1k
views
Handling NA's in Deseq2
Dese
DESeq2
23 months ago
Asger Mølgaard
• 0
0
votes
5
replies
1.2k
views
DESeq2 analysis
DESe
DESeq2
21 months ago
Adèle
• 0
16 results • Page
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Comment: Bioconductor 3.20 Release Schedule
by
randyprice13102000
• 0
This offers much info https://bioconductor.org/checkResults/release/bioc-LATEST/
Comment: Filtering after DESeq
by
ATpoint
★ 4.8k
The problem is that your prefilter is not group-aware so the behaviour of seeing these sorts of outliers is expected. This is why I always …
Comment: GSEA preranked analysis downstream of DEseq2
by
ATpoint
★ 4.8k
All due respect, this is what people do since pvalues exist, so this paper is not a reference, not is this a special score that merits a na…
Comment: Check removeBatchEffect effectiveness
by
ATpoint
★ 4.8k
> insert size, mean GC, etc... This is not a classical "batch" in the common sense, at least I've never seen this to be corrected for expl…
Answer: Check removeBatchEffect effectiveness
by
Gordon Smyth
52k
Your call to removeBatchEffect() is not correct because that function does not have an argument called `batch3`, meaning that the batch fac…
Votes
Answer: DiffBind; Error: No sites have activity greater than filter value
DiffBind; Error: No sites have activity greater than filter value
remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
How to remove X & Y chromosome genes from RNAseq data
Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?
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