lfa: Logistic Factor Analysis for Categorical Data

LFA is a method for a PCA analogue on Binomial data via estimation of latent structure in the natural parameter.

Author
Wei Hao, Minsun Song, John D. Storey
Date of publication
None
Maintainer
Wei Hao <whao@princeton.edu>, John D. Storey <jstorey@princeton.edu>
License
GPL-3
Version
1.4.0
URLs

View on Bioconductor

Man pages

af
Allele frequencies
af_snp
Allele frequencies for SNP
center
Matrix centering
centerscale
Matrix centering and scaling
hgdp_subset
HGDP subset
lfa
Logistic factor analysis.
model.gof
LFA model goodness of fit
pca_af
PCA Allele frequencies
read.bed
File input: .bed
read.tped.recode
Read .tped
trunc.svd
Truncated singular value decomposition

Files in this package

lfa/DESCRIPTION
lfa/NAMESPACE
lfa/R
lfa/R/af.R
lfa/R/data.R
lfa/R/datahandling.R
lfa/R/lfa.R
lfa/R/svd.R
lfa/build
lfa/build/vignette.rds
lfa/data
lfa/data/hgdp_subset.rda
lfa/inst
lfa/inst/doc
lfa/inst/doc/lfa.R
lfa/inst/doc/lfa.Rnw
lfa/inst/doc/lfa.pdf
lfa/man
lfa/man/af.Rd
lfa/man/af_snp.Rd
lfa/man/center.Rd
lfa/man/centerscale.Rd
lfa/man/hgdp_subset.Rd
lfa/man/lfa.Rd
lfa/man/model.gof.Rd
lfa/man/pca_af.Rd
lfa/man/read.bed.Rd
lfa/man/read.tped.recode.Rd
lfa/man/trunc.svd.Rd
lfa/src
lfa/src/Makevars
lfa/src/fastmat.c
lfa/src/lfa-init.c
lfa/src/lfa.c
lfa/src/lfa.h
lfa/src/lreg.c
lfa/vignettes
lfa/vignettes/lfa.Rnw
lfa/vignettes/lfa.bib