Filebacked Big Matrices

Constructors and methods for class FBM.

FBM() as_FBM()

Class FBM

`[`(<FBM>,<ANY>,<ANY>,<ANY>) `[<-`(<FBM>,<ANY>,<ANY>,<ANY>) dim(<FBM>) length(<FBM>) typeof(<FBM>) diag(<FBM>)

Methods for the FBM class

FBM.code256() add_code256()

Class FBM.code256

big_copy()

Copy as a Filebacked Big Matrix

Statistical models

Column-wise and sparse multivariate linear and logistic models.

big_univLinReg()

Column-wise linear regression

big_univLogReg()

Column-wise logistic regression

big_spLinReg()

Sparse linear regression

big_spLogReg()

Sparse logistic regression

AUC() AUCBoot()

AUC

get_beta()

Combine sets of coefficients

SVD (and PCA)

big_SVD()

Partial SVD

big_randomSVD()

Randomized partial SVD

Matrix operations

big_cor()

Correlation

big_crossprodSelf() crossprod(<FBM>,<missing>)

Crossprod

big_tcrossprodSelf() tcrossprod(<FBM>,<missing>)

Tcrossprod

big_prodVec()

Product with a vector

big_prodMat() `%*%`(<FBM>,<matrix>) `%*%`(<matrix>,<FBM>)

Product with a matrix

big_cprodVec()

Cross-product with a vector

big_cprodMat() crossprod(<FBM>,<matrix>) tcrossprod(<FBM>,<matrix>) crossprod(<matrix>,<FBM>) tcrossprod(<matrix>,<FBM>)

Cross-product with a matrix

Plot and predict methods

theme_bigstatsr()

Theme ggplot2

plot(<mhtest>)

Plot method

predict(<mhtest>)

Predict method

predict(<big_sp>)

Predict method

predict(<big_sp_list>)

Predict method

summary(<big_sp_list>)

Summary method

plot(<big_sp_list>)

Plot method

plot(<big_SVD>)

Plot method

predict(<big_SVD>)

Scores of PCA

asPlotlyText()

Plotly text

pasteLoc()

Get coordinates on plot

Utilities

big_colstats()

Standard univariate statistics

big_scale()

Some scaling functions

big_counts()

Counts for class FBM.code256

big_read()

Read a file as FBM

big_write()

Write an FBM to a file

big_transpose()

Transpose an FBM

big_increment()

Increment an FBM

big_parallelize()

Split-parApply-Combine

big_apply()

Split-Apply-Combine

block_size()

Determine a correct value for the block.size parameter

reexports

Objects exported from other packages

without_downcast_warning()

Temporarily disable downcast warning

sub_bk()

Replace extension '.bk'

covar_from_df()

Numeric matrix from data frame