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Timecourse
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1
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6
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2.7k
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Can I use EdgeR log2(cpm) instead of voom log2(cpm) to be analyzed as microarray data?
limma
edger
timecourse
without replicate
voom
written 7.5 years ago by
Camila Orellana
▴ 10
0
votes
1
reply
244
views
Behavior of most genes in Ribosome-footprints dataset deviates from expected
DESeq2
timecourse
time
updated 3 months ago by
Michael Love
42k • written 3 months ago by
Anastasiia
• 0
0
votes
1
reply
512
views
DESeq2, Timecourse using fitted splines
timecoursedata
RNASeqData
TimeCourse
DESeq2
updated 10 months ago by
Michael Love
42k • written 10 months ago by
georgii.vdovin
• 0
0
votes
2
replies
1.4k
views
DE genes over time with DESeq2
deseq2
timecourse
design and contrast matrix
updated 8 weeks ago by
ta_awwad
▴ 10 • written 8.5 years ago by
Assa Yeroslaviz
★ 1.5k
3
votes
5
replies
1.4k
views
DESeq2, time-course interpretation
Transcriptomics
TimeCourse
DESeq2
updated 9 months ago by
Michael Love
42k • written 10 months ago by
smac97
• 0
0
votes
1
reply
565
views
DESeq2 + analysis question for design with uneven time point design
timecourse
KEGG
DESeq2
updated 11 months ago by
Michael Love
42k • written 11 months ago by
Fred
• 0
0
votes
2
replies
173
views
What to the log 2 fold changes mean using LRT on time course in DESeq2
DESeq2
timecourse
DifferentialExpression
updated 4 weeks ago by
James W. MacDonald
65k • written 4 weeks ago by
joshua.mannheimer
• 0
1
vote
6
replies
933
views
Time-series RNA-seq analysis using DESeq2
time-series
DESeq2
RNASeq
timecoursedata
TimeCourse
updated 8 months ago by
ATpoint
★ 4.1k • written 8 months ago by
Debebe
• 0
0
votes
1
reply
272
views
DESeq Design for Time-Series Analysis
RNASeq
DESeq2
timecourse
3 months ago
WS
• 0
9 results • Page
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Comment: Extremely small p-values using Limma for proteomic data
by
Robert Castelo
★ 3.3k
From the point of view of visualization, I find handy the fact that raw p-values give more resolution than adjusted ones, which allows one …
Comment: deseq2 results
by
ATpoint
★ 4.1k
> the results are not satisfactory to me Well, what is your question? The DESeq2 vignette covers how to do analysis, and some diagnostics…
Comment: Extremely small p-values using Limma for proteomic data
by
ATpoint
★ 4.1k
It's not an implementation problem I am discussing (it's trivial obviously) -- more that for most purposes the y-axis metric should be the …
Comment: Extremely small p-values using Limma for proteomic data
by
Robert Castelo
★ 3.3k
For visualization purposes you can draw an horizontal line at the p-value cutoff that meets the experiment-wide FDR cutoff. For instance, i…
Comment: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call
by
ATpoint
★ 4.1k
Ask yourself the question how a gene that is exactly the same everywhere adds anything to any analysis. Heatmaps usually take DEGs to infer…
Votes
Answer: minfi latest update for EPIC V2 chip
A: Error in DESeqDataSet : some values in assay are not integers
Answer: Cannot connect to ExperimentHub server
Answer: confused with tximport counts abundance using salmon input
Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call
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Robert Castelo
★ 3.3k
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Gyan Prakash Mishra
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Gordon Smyth
50k
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WouterDeCoster
▴ 130
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Michael Love
42k
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