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DESEQ2
•
reset
3
votes
7
replies
1.6k
views
The discrepancy between the mean of extracted fitted value and calculated mean and SE based on LFC.
deseq2
deseq
7.3 years ago
blastzone.heimerdinger
▴ 20
0
votes
4
replies
1.6k
views
how do compare with DESeq2
deseq2
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
lkianmehr
• 0
0
votes
8
replies
2.8k
views
DESeq2 Multi factor, multi time point comparison design formula
rna-seq
deseq2
deseq
R
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
arun.thirumaran
• 0
0
votes
1
reply
784
views
Cultivar+Time+Treatment study in Deseq2
bioconductor
deseq2
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
suren.neupane04
• 0
0
votes
8
replies
4.9k
views
DESeq2: handling NA values in colData
deseq2
coldata
NA
updated 15 months ago by
Michael Love
43k • written 7.3 years ago by
t.kuilman
▴ 170
3
votes
1
reply
1.2k
views
DESeq2: Handling batch effects with only one control replicate coming from another batch
deseq2
rna-seq
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
bn3301
• 0
0
votes
1
reply
1.4k
views
Invalid class DESeqDataSet object with Phyloseq
deseq2
phyloseq
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
amgodogma
▴ 10
7
votes
4
replies
1.9k
views
DESeq2 error: "vector: cannot make a vector of mode 'S4'"
deseq2
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
ben.langmead
▴ 20
1
vote
4
replies
2.2k
views
Log2 fold-change shrinkage fails with lfcShrink when using the 'apeglm' method
deseq2
apeglm
lfcshrink
7.3 years ago
coulsonr
▴ 20
2
votes
6
replies
1.3k
views
accounting for technical variation in DESEQ2
deseq2
normalization
updated 7.3 years ago by
Peter Langfelder
★ 3.0k • written 7.3 years ago by
marco.trizzino83
▴ 10
1
vote
10
replies
2.9k
views
Ribo-seq/RNA-seq analysis -- DESeq2 multi-factor design
deseq2
sequencing
ribosome profiling
riboseq
multiple factor design
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
kotcha.m
▴ 10
1
vote
9
replies
2.0k
views
DESeq2 - v1.18 different p-values from v1.20 (Is it minmu?)
deseq2
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
andrebolerbarros
▴ 20
1
vote
5
replies
7.9k
views
DESEq2 - Change reference level change "Contrasts" results
deseq2
7.3 years ago
andrebolerbarros
▴ 20
0
votes
3
replies
874
views
A few up-regulated genes using an extravagant number of reads - effect on DE analysis
rnaseq
deseq2
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
Poikilo
• 0
1
vote
7
replies
2.6k
views
skewed differentially expressed gene results - DESeq2
deseq2
differential gene expression
outliers
updated 7.3 years ago by
Ryan C. Thompson
★ 7.9k • written 7.3 years ago by
CE
▴ 20
5
votes
9
replies
2.7k
views
DESeq2 baseMean from DiffBind summarizedExperiment
deseq2
diffbind
basemean
summarizedexperiment
7.3 years ago
rbronste
▴ 60
2
votes
4
replies
9.9k
views
Adding gene names (or symbols) in my DESeq result
rnaseq
gene names
deseq2
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
ytlin610
▴ 10
6
votes
4
replies
4.3k
views
[DESeq2] Extracting results based on set thresholds
deseq2
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
nelson.s.garcia
▴ 10
0
votes
3
replies
2.1k
views
Dose-response study with DESeq2 and no dose replicates
deseq2
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
rowcyclecamp
• 0
0
votes
6
replies
1.0k
views
DESeq2 / How to visualize differences into control conditions
deseq2
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
vincentpailler
• 0
0
votes
1
reply
1.1k
views
DESeq2 intstallation error on fedora
deseq2
R
fedora
qiime
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
kperlejewski
• 0
0
votes
3
replies
1.9k
views
RNA-seq data analysis with two species using DESeq2
DESeq2
updated 7.3 years ago by
Simon Anders
★ 3.8k • written 7.3 years ago by
fl
▴ 20
0
votes
3
replies
1.4k
views
time series RNA-seq allowing time offset between individuals
edgeR
deseq2
rna-seq
timecourse
fittimeseries
updated 7.3 years ago by
Aaron Lun
★ 29k • written 7.3 years ago by
jpsf
• 0
0
votes
1
reply
2.0k
views
Deseq2 default Cooks distance threshold
Deseq2
outliers
cookscutoff
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
jaime.alvarez.benayas
• 0
5
votes
4
replies
2.7k
views
lfcShrink behavior with homogeneous expression dataset
deseq2
lfcshrink
betaprior
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
mat.lesche
▴ 110
0
votes
1
reply
1.6k
views
DESeq2/tximport 'duplicate rownames not allowed' error
tximport
deseq2
7.3 years ago
ctl
• 0
14
votes
5
replies
25k
views
Dealing with genes that have Padj=NA
deseq2
updated 2.3 years ago by
Juan Pablo
• 0 • written 9.9 years ago by
raya.fai
▴ 60
6
votes
4
replies
8.0k
views
DESeq2 with proteomics data
deseq2
updated 6 months ago by
wook2014
• 0 • written 7.3 years ago by
shyu
▴ 10
2
votes
5
replies
5.4k
views
Batch Effect Correction
batch effect
removebatcheffect
edgeR
rld
DEseq2
7.3 years ago
Antonio Ahn
▴ 10
1
vote
3
replies
1.8k
views
Help interpreting DESeq2 method for gene-wide dispersion estimates
deseq2
negative binomial model
glm
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
jeremy.teitelbaum
• 0
0
votes
1
reply
736
views
DESeq2 with too many rejections
deseq2
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
Raymond
▴ 20
2
votes
4
replies
765
views
Extract x and y values from plotDispEsts
R
deseq2
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
LiZ
• 0
2
votes
1
reply
2.9k
views
Should I use alpine and can I convert the output back to counts?
alpine
deseq2
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
harry.smith
▴ 20
0
votes
4
replies
2.5k
views
DESeq2 I installed from latest Bionconductor version is still old version
deseq2
R
bioconductor
updated 7.3 years ago by
Axel Klenk
★ 1.1k • written 7.3 years ago by
lxl623
• 0
3
votes
9
replies
3.4k
views
DESeq2 Normalized Counts for Mfuzz
deseq2
rnaseq
mfuzz
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
rbenel
▴ 50
0
votes
2
replies
868
views
Times series - DE genes over the time of individual condition design matrix, LRT/Wald
deseq2
updated 7.3 years ago by
Michael Love
43k • written 7.4 years ago by
justinjj
▴ 10
1
vote
2
replies
1.7k
views
DESeq2 package for R 3.3.3
deseq2
R 3.3.3
7.3 years ago
valentina.losardo
• 0
3
votes
9
replies
2.6k
views
deseq2 zeros in all treatments, fold change
deseq2
updated 7.3 years ago by
Michael Love
43k • written 7.4 years ago by
mary.cho753
▴ 10
2
votes
2
replies
656
views
Assessing within-individual and between-individual variability
deseq2
updated 7.4 years ago by
Michael Love
43k • written 7.4 years ago by
Fredrik
• 0
0
votes
3
replies
1.2k
views
DESeq2 use of LRT
deseq2
updated 7.4 years ago by
Michael Love
43k • written 7.4 years ago by
soheilazareie
• 0
3
votes
2
replies
1.2k
views
Comparisons of comparisons in DESeq2
deseq2
updated 7.4 years ago by
Michael Love
43k • written 7.4 years ago by
Iora
▴ 10
1
vote
4
replies
1.4k
views
Multiple comparisons with DESeq2
deseq2
updated 7.4 years ago by
Michael Love
43k • written 7.4 years ago by
spr
▴ 10
0
votes
4
replies
908
views
Advice on DESeq2 design
deseq2
updated 7.4 years ago by
Michael Love
43k • written 7.4 years ago by
pocket.change.j
• 0
0
votes
3
replies
1.5k
views
time-series, no replicates, no control groupe
deseq2
time-series
without replicate
updated 7.4 years ago by
Michael Love
43k • written 7.4 years ago by
bahlv
• 0
0
votes
1
reply
2.3k
views
DeSeq2 installation on ubuntu fails
deseq2
R
ubuntu
bioconductor
rstudio
updated 7.4 years ago by
Michael Love
43k • written 7.4 years ago by
drumarsohail
• 0
0
votes
1
reply
506
views
Help with design for 2 controls in infection time points with deseq2
deseq2
updated 7.4 years ago by
Michael Love
43k • written 7.4 years ago by
diya.sen
• 0
3
votes
5
replies
1.1k
views
DESeq2: possible to compare read counts at single nucleotide level ?
deseq2
rnaseq
updated 7.4 years ago by
Gordon Smyth
53k • written 7.4 years ago by
bioinfo
• 0
1
vote
5
replies
2.2k
views
How do I stop DESeq2 from loading and additional errors related to the package.
r
deseq2
error
updated 7.4 years ago by
Axel Klenk
★ 1.1k • written 7.4 years ago by
mdi3
• 0
0
votes
2
replies
3.3k
views
What are the different strategies to filter out low count genes?
rnaseq
deseq2
differential gene expression
updated 7.4 years ago by
Wolfgang Huber
★ 13k • written 7.4 years ago by
Arindam
▴ 80
0
votes
4
replies
3.4k
views
Design formula in DeSeq2 to control for a variable
deseq2
updated 4.9 years ago by
Michael Love
43k • written 7.4 years ago by
Lakhansing Pardeshi
• 0
4,839 results • Page
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