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dese
•
reset
2
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2
replies
819
views
Why is the inclusion of RUVs not reflected in the EDA plots produced from normalised counts extracted from deseq2?
RUVSeq
DESeq2
dese
14 months ago
BioinfGuru
▴ 70
0
votes
1
reply
567
views
collapseReplicates dimension error
DESeq2
Dese
updated 18 months ago by
Michael Love
43k • written 18 months ago by
Léa
• 0
0
votes
3
replies
733
views
DESeq2 Results in Different Pvalue & Log2FC using the same code and data
DESeq2
dese
written 20 months ago by
Xu
• 0
0
votes
2
replies
775
views
Cross-species analysis using DESeq2 - size factor computation
dese
DESeq2
20 months ago
pl23
• 0
0
votes
2
replies
1.1k
views
Linear Model Fitting and Colinearity
dese
DESeq2
22 months ago
Hugo
• 0
0
votes
5
replies
1.4k
views
DESeq2 analysis
DESe
DESeq2
2.2 years ago
Adèle
• 0
0
votes
2
replies
2.3k
views
Handling NA's in Deseq2
Dese
DESeq2
2.4 years ago • updated 2.3 years ago
Asger Mølgaard
• 0
2
votes
17
replies
3.3k
views
lfcshrink error DESeq2
DESeq2
lfcshrink
DESe
updated 2.4 years ago by
Michael Love
43k • written 2.4 years ago by
Alina
• 0
4
votes
5
replies
2.2k
views
Adding cell population estimates as a covariate in DESeq2 differential gene expression analysis
DESeq2
Dese
DifferentialRegulation
differe
updated 16 months ago by
ij283
• 0 • written 2.5 years ago by
Bernardo
▴ 10
3
votes
3
replies
1.3k
views
Merging two plated in R
dese
DESeq2
updated 3.4 years ago by
James W. MacDonald
68k • written 3.4 years ago by
lmrogers34
▴ 10
0
votes
5
replies
4.6k
views
Error in DESeqDataSet(se, design = design, ignoreRank) : all variables in design formula must be columns in colData
DESE
DESeq2
updated 3.4 years ago by
Basti
▴ 780 • written 3.4 years ago by
Maryam.sed1400
• 0
1
vote
3
replies
1.9k
views
ERROR: unable to find an inherited method for function ‘dispersions<-’ for signature ‘"DESeqDataSet",
DESeq2
dese
3.7 years ago
aedavids
▴ 20
0
votes
2
replies
1.2k
views
DESeq2 ratio of ratios and p-value
DESeq2
dese
3.9 years ago
wilfried.guiblet
• 0
0
votes
2
replies
917
views
where the gene is overexpressed and down regulated while doing DESeq2 analysis
DESe
DESeq2
updated 4.0 years ago by
Michael Love
43k • written 4.0 years ago by
Dinesh
• 0
2
votes
3
replies
1.4k
views
Single sided P-value for DESeq2 Likelihood Ratio Test
DESeq2
DESe
updated 4.6 years ago by
Michael Love
43k • written 4.6 years ago by
glennli
• 0
0
votes
2
replies
1.3k
views
Effect of within-group variation on gene expression analysis
DESeq2
updated 4.9 years ago by
Michael Love
43k • written 4.9 years ago by
hpapoli
• 0
16 results • Page
1 of 1
Recent ...
Replies
Comment: Help with defining groups
by
Phinney, Brett
▴ 10
I got it working , thank you!!!
Comment: Check removeBatchEffect effectiveness
by
massimo
• 0
I would kindly ask for additional support. When not including the design_timepoint argument in removeBatchEffect and thus keeping the inter…
Comment: Error Loading Experiment from SimBenchData Package
by
ksankaran
• 0
Aha, that was it! The object was class Seurat, but I didn't have it installed. After installing, everything works as expected.
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset?
by
ATpoint
★ 5.0k
Is a method that is so computationally expensive really beneficial and necessary? You seem to have biological replication, don't you, so ps…
Answer: NA values for DESeq2 p-values and adjusted p-values using large sample sizes
by
ATpoint
★ 5.0k
Outliers without replacement, independent filtering or all-zero counts for that gene. That's the three options that trigger NAs https://bio…
Votes
Comment: Check removeBatchEffect effectiveness
Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)
Answer: Error Loading Experiment from SimBenchData Package
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
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