DSC configuration script


#!/usr/bin/env dsc

simulate: R(library(mashr)) + simulate_*@intro_mash.Rmd
  n_effects: 500
  n_cond: 5
  $data: data

get_cov: R(library(mashr)) + cov*@intro_mash.Rmd
  data: $data
  $U_c: U.c 

fit: R(library(mashr)) + fit*@intro_mash.Rmd
  U_c: $U_c
  data: $data
  $m_c: m.c
  @ALIAS: U.c = U_c
 
DSC:
  run: simulate * get_cov * fit
  R_libs: mashr@stephenslab/mashr (0.2.5+)
  output: mash_result
simulate->get_cov->fit 

library(mashr)
simdata = simple_sims(n_effects,n_cond,1)
data = mash_set_data(simdata$Bhat, simdata$Shat)


library(mashr)
U.c = cov_canonical(data)
print(names(U.c))


library(mashr)
m.c = mash(data, U.c)