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LBMC
yvertlab
evolution_plasticity
plasticity_mutation
HTRfit
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e27a0df3
Commit
e27a0df3
authored
3 years ago
by
Arnaud Duvermy
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Update README.md
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@@ -10,7 +10,7 @@ Purpose:
Main step:
1) Estimate size factor
###
1) Estimate size factor
Median ratio method is used to estimate the size factor per sample.
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@@ -19,14 +19,14 @@ Normalized counts allow minimizing biais linked to library size.
By normalizing the counts DESEQ2 aims to make sure differential expression are based on factors study and not to sequencing depth
/!
\
gene length is not take into account !
2)
Estimate dispersion
###
2)Estimate dispersion
Purpose: Estimate the variability between replicates
Purpose: Estimate the variability between replicates
<br/>
Get dispersion estimate for each gene using Maximum Linkelihood Estimatation
Get dispersion estimate for each gene using Maximum Linkelihood Estimatation
<br/>
Fit a curve to wise gene dispersion estimate
3) Fit linear model
###
3) Fit linear model
The differential expression analysis uses a generalized linear model of the form:
Kij ∼ NB(µij , α i )
<br/>
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