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time series
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reset
1
vote
8
replies
1.8k
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time series, block by patient, between and within comparisons limma-voom
rna-seq
time series
patient
limma-voom
updated 5.6 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 5.4 years ago by
Michael Love
41k • 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
41k • 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
842
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
41k • 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
41k • 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 5.3 years ago by
Aaron Lun
★ 28k • written 5.3 years ago by
rm1238
• 0
0
votes
0
replies
666
views
clustering of scRNAseq gene expression at multiple time points
scRNA-seq
time series
3.8 years ago
Bogdan
▴ 670
1
vote
0
replies
867
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
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Comment: Why does GSEA on edgeR results for randomized samples give highly significant p-
by
gene_bioconductor
▴ 10
Thanks for your thoughtful and detailed comment, Gordon
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
I looked into the genomic distributions. Please see the screenshot attatched ![ distrubution for female loci, boot1 and boot2][1] how do …
Answer: How to save the DEXSeq results
by
Michael Love
41k
If you look at the output here: https://bioconductor.org/packages/release/bioc/vignettes/DEXSeq/inst/doc/DEXSeq.html#4_Testing_for_differe…
Answer: Method to find pathways different between 2 groups
by
Robert Castelo
★ 3.3k
Hi, regarding how could you combine the result from each tool, one option is using a so-called "ensembl method", for instance, the package …
Answer: Couldn't connect to server while using "pathways"
by
James W. MacDonald
65k
As ATpoint already noted, you should proceed from the assumption that your audience knows nothing about what you are doing, and provide eno…
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Answer: Method to find pathways different between 2 groups
Answer: Method to find pathways different between 2 groups
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Answer: Method to find pathways different between 2 groups
Comment: Trying to use enrichGO
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