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Time Series
•
reset
1
vote
8
replies
1.8k
views
time series, block by patient, between and within comparisons limma-voom
rna-seq
time series
patient
limma-voom
updated 5.7 years ago by
Aaron Lun
★ 28k • written 5.7 years ago by
aec
▴ 90
4
votes
7
replies
3.2k
views
LIMMA time series spline model.matrix design setup
limma
design
model.matrix
time series
splines
updated 5.3 years ago by
Aaron Lun
★ 28k • written 5.3 years ago by
tleona3
• 0
0
votes
4
replies
1.3k
views
DESeq2 multifactor formula design
deseq2
time series
multiple factor design
updated 5.5 years ago by
Michael Love
42k • written 5.5 years ago by
Jane
• 0
1
vote
2
replies
1.3k
views
DESeq2: RNA-Seq time series analysis after removal of batch effect
deseq2
time series
remove batch effect
5.2 years ago
Nicola
• 0
1
vote
2
replies
2.0k
views
DeSEQ2- What is the difference between Gene Clustering and using LRT for Time Series experiment WITHOUT treatments
deseq2
Time Series
Gene Clustering
LRT
ATACseq
updated 5.2 years ago by
Michael Love
42k • written 5.2 years ago by
kaiser.karim
• 0
1
vote
2
replies
1.5k
views
Pair-wise Limma Analysis with time series data and two levels (control and treatment)
limma
microarray
time series
DEG
paired
updated 4.6 years ago by
Gordon Smyth
50k • written 4.6 years ago by
kawess
• 0
1
vote
2
replies
853
views
Time series experiment analysis in DEseq2 without T=0 and three independent experiments with linked samples
deseq2
rnaseq
repeated measures
time series
design formula
updated 4.3 years ago by
Michael Love
42k • written 4.3 years ago by
Dorien
▴ 10
3
votes
2
replies
2.2k
views
DESeq2 time course model
deseq2
time series
time course
updated 3.7 years ago by
Michael Love
42k • written 3.7 years ago by
bsierieb
▴ 10
7
votes
2
replies
3.2k
views
Incorporating RUVSeq factors of unwanted variation in DESeq2 time course analysis
deseq2
ruvseq
spike-in
time course
time series
updated 6.4 years ago by
davide risso
▴ 950 • written 6.4 years ago by
staceyborrego
▴ 20
0
votes
2
replies
1.0k
views
Design matrix choice for time series experiment using limma
limma
time series
help
updated 5.4 years ago by
Aaron Lun
★ 28k • written 5.4 years ago by
rm1238
• 0
0
votes
0
replies
670
views
clustering of scRNAseq gene expression at multiple time points
scRNA-seq
time series
3.9 years ago
Bogdan
▴ 670
1
vote
0
replies
873
views
Job:
Bioinformatics PhD: The circadian clock in the ageing plant, University of York, UK
transcriptomics
gene expression
time series
plant biology
circadian
Job
4.6 years ago
dezer
▴ 10
12 results • Page
1 of 1
Recent ...
Replies
Comment: Numerical differences in DESeq2 output depending on different design matrix cons
by
JKim
• 0
The 1st model has an interaction term, but the 2nd model doesn't have the interaction term. That makes the difference.
Comment: Ensembl plants at annotationHub?
by
Daniele
• 0
Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
Comment: Numerical differences in DESeq2 output depending on different design matrix cons
by
swbarnes2
★ 1.4k
If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?
Comment: DESeq2- Mysterious interaction suppresses DEGs
by
shaunpeterson
• 0
The images I tried to attach didn't attach. Here is the PCA (MDS) of all the samples, with the Cortex outlier highlighed. ![enter image de…
Comment: STRINGdb : error with string_db$plot_network()
by
damian.szk
▴ 80
ok. Forcing non-secure protocol should not be needed anymore, due to changes in the underlying library. However, I will look at why "HTTP" …
Votes
Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
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