basiscor  R Documentation 
basiscor
computes the correlation matrix between
basis vectors, i.e. the columns of its basis
matrix – which is the model's first matrix factor.
profcor
computes the correlation matrix between
basis profiles, i.e. the rows of the coefficient
matrix – which is the model's second matrix factor.
basiscor(x, y, ...)
profcor(x, y, ...)
x 
a matrix or an object with suitable methods

y 
a matrix or an object with suitable methods

... 
extra arguments passed to 
Each generic has methods defined for computing
correlations between NMF models and/or compatible
matrices. The computation is performed by the base
function cor
.
signature(x = "NMF", y =
"matrix")
: Computes the correlations between the basis
vectors of x
and the columns of y
.
signature(x = "matrix", y =
"NMF")
: Computes the correlations between the columns of
x
and the the basis vectors of y
.
signature(x = "NMF", y = "NMF")
:
Computes the correlations between the basis vectors of
x
and y
.
signature(x = "NMF", y =
"missing")
: Computes the correlations between the basis
vectors of x
.
signature(x = "NMF", y = "matrix")
:
Computes the correlations between the basis profiles of
x
and the rows of y
.
signature(x = "matrix", y = "NMF")
:
Computes the correlations between the rows of x
and the basis profiles of y
.
signature(x = "NMF", y = "NMF")
:
Computes the correlations between the basis profiles of
x
and y
.
signature(x = "NMF", y =
"missing")
: Computes the correlations between the basis
profiles of x
.
# generate two random NMF models
a < rnmf(3, 100, 20)
b < rnmf(3, 100, 20)
# Compute autocorrelations
basiscor(a)
profcor(a)
# Compute correlations with b
basiscor(a, b)
profcor(a, b)
# try to recover the underlying NMF model 'a' from noisy data
res < nmf(fitted(a) + rmatrix(a), 3)
# Compute correlations with the true model
basiscor(a, res)
profcor(a, res)
# Compute correlations with a random compatible matrix
W < rmatrix(basis(a))
basiscor(a, W)
identical(basiscor(a, W), basiscor(W, a))
H < rmatrix(coef(a))
profcor(a, H)
identical(profcor(a, H), profcor(H, a))
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