logLikDerP               package:edgeR               R Documentation

_L_o_g-_l_i_k_e_l_i_h_o_o_d _f_o_r _p_r_o_p_o_r_t_i_o_n

_D_e_s_c_r_i_p_t_i_o_n:

     Log-likelihood and derivatives for the proportion parameter of
     negative binomial (mean = library size * proportion)

_U_s_a_g_e:

     logLikDerP(p, y, lib.size, r, der = 0)

_A_r_g_u_m_e_n_t_s:

       p: vector of proportion parameters to be evaluated

       y: matrix of data

lib.size: vector of library sizes

       r: size parameter of negative binomial distribution

     der: derivative, either 0 (the function), 1 (first derivative) or
          2 (second derivative)

_V_a_l_u_e:

     vector of evaluations

_A_u_t_h_o_r(_s):

     Mark Robinson, Davis McCarthy

_E_x_a_m_p_l_e_s:

     y<-matrix(rnbinom(20,size=1.5,mu=10),nrow=5)
     d<-DGEList(data=y,group=rep(1:2,each=2),lib.size=rep(c(1000:1001),2))

     this.p<-rowMeans( y/ outer(rep(1,nrow(y)),d$lib.size) )
     d1p<-logLikDerP(this.p,y,d$lib.size,r=1.5,der=1)

