opt_yz: Optimize Y and Z given X and C

In linnykos/eSVD2: eSVD2 for performing the eSVD-DE for cohort-wide differential expression analysis

Optimize Y and Z given X and C

Description

Optimize Y and Z given X and C

Usage

opt_yz(
  YZ_init,
  XC,
  k,
  fixed_cols,
  loader,
  family,
  s,
  gamma,
  l2peny,
  l2penz,
  verbose = 0,
  inplace = FALSE,
  ...
)

Arguments

YZ_init	Initial value for the '[Y Z]' matrix, Y [p x k], Z [p x r]
XC	The '[X C]' matrix, X [n x k], C [n x r]
k	Number of columns in X and Y
fixed_cols	Which columns in YZ need to be fixed
loader	The data loader, typically returned by data_loader()
family	A family object, typically returned by esvd_family()
s	The library size vector, [n x 1]
gamma	The nuisance parameter vector, [p x 1]
l2peny	The l2 penalty parameter for Y, a scalar
l2penz	The l2 penalty parameter for Z, a scalar
verbose	Verbosity parameter
inplace	Whether the input XC_init will be modified and returned
...	Additional parameters

linnykos/eSVD2 documentation built on July 17, 2024, 12:01 a.m.