ThinDataToSummarizedExperiment  R Documentation 
This only keeps the mat
, design_obs
, designmat
,
and coefmat
elements of the ThinData object.
ThinDataToSummarizedExperiment(obj)
obj 
A ThinData S3 object. This is generally output by either

A SummarizedExperiment
S4
object. This is often used in Bioconductor when performing
differential expression analysis.
David Gerard
## Generate simulated data and modify using thin_diff().
## In practice, you would use real data, not simulated.
set.seed(1)
n < 10
p < 1000
Z < matrix(abs(rnorm(n, sd = 4)))
alpha < matrix(abs(rnorm(p, sd = 1)))
mat < round(2^(alpha %*% t(Z) + abs(matrix(rnorm(n * p, sd = 5),
nrow = p,
ncol = n))))
design_perm < cbind(rep(c(0, 1), length.out = n), runif(n))
coef_perm < matrix(rnorm(p * ncol(design_perm), sd = 6), nrow = p)
design_obs < matrix(rnorm(n), ncol = 1)
target_cor < matrix(c(0.9, 0))
thout < thin_diff(mat = mat,
design_perm = design_perm,
coef_perm = coef_perm,
target_cor = target_cor,
design_obs = design_obs,
permute_method = "hungarian")
## Convert ThinData object to SummarizedExperiment object.
seobj < ThinDataToSummarizedExperiment(thout)
class(seobj)
## The "O1" variable in the colData corresponds to design_obs.
## The "P1" and "P2" variables in colData correspond to design_perm.
seobj
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.