diff --git a/README.md b/README.md index aeb7303add162da3c9ac13926b34bf50b6fe5a88..d72f0e44384d0b13196e397219404456d423f35f 100644 --- a/README.md +++ b/README.md @@ -28,18 +28,19 @@ Fit a curve to wise gene dispersion estimate ### 3) Fit linear model -The differential expression analysis uses a generalized linear model of the form: +The differential expression analysis uses a generalized linear model of the form: <br/> Kij ∼ NB(µij , α i )<br/> µij = s j q ij <br/> log 2 (q ij ) = x j. β i <br/> where counts K ij for gene i, sample j are modeled using a Negative Binomial distribution with fitted mean µ ij and a gene-specific dispersion parameter α i . The fitted mean is composed of a -sample-specific size factor s j and a parameter q ij proportional to the expected true concentration -of fragments for sample j. The coefficients β i give the log2 fold changes for gene i for each col- -umn of the model matrix X. The sample-specific size factors can be see as the logFC between condition. +sample-specific size factor s j and a parameter q ij proportional to the expected true concentration of fragments for sample j. The coefficients β i give the log2 fold changes for gene i for each column of the model matrix X. +x j. β i can be see as the logFC between condition (for treated condition). -4) Wald Test H0: Log(FC) = 0 +### 4) Wald Test H0: + +Test if Log(FC) = 0