Files in privefl/bigstatsr

Statistical Tools for Filebacked Big Matrices

.Rbuildignore

.gitattributes

.github/.gitignore

.github/workflows/check-standard.yaml

.github/workflows/test-coverage.yaml

.gitignore

DESCRIPTION

NAMESPACE

NEWS.md R/AUC.R R/FBM-attach.R R/FBM-code256.R R/FBM-copy.R R/FBM.R R/RcppExports.R R/SVD.R R/apply-parallelize.R R/biglasso.R R/bigstatsr-package.R R/colstats.R R/crochet.R R/crossprodSelf.R R/mult-mat.R R/mult-vec.R R/pcor.R R/plot.R R/predict.R R/randomSVD.R R/read-write.R R/scaling.R R/summary.R R/tcrossprodSelf.R R/transpose.R R/univLinReg.R R/univLogReg.R R/utils-assert.R R/utils.R R/zzz.R README.md

_pkgdown.yml

bigstatsr.Rproj

bigstatsr.png

cleanup

codecov.yml

docs/404.html

docs/articles/big-apply.html

docs/articles/big-apply_files/header-attrs-2.7.2/header-attrs.js

docs/articles/bigstatsr-and-bigmemory.html

docs/articles/bigstatsr-and-bigmemory_files/header-attrs-2.7.2/header-attrs.js

docs/articles/index.html

docs/articles/operations-with-scaling.html

docs/articles/operations-with-scaling_files/header-attrs-2.7.2/header-attrs.js

docs/articles/penalized-regressions.html

docs/articles/penalized-regressions_files/figure-html/unnamed-chunk-4-1.png

docs/articles/penalized-regressions_files/figure-html/unnamed-chunk-5-1.png

docs/articles/penalized-regressions_files/header-attrs-2.7.2/header-attrs.js

docs/articles/read-FBM-from-file.html

docs/articles/read-FBM-from-file_files/header-attrs-2.7.2/header-attrs.js

docs/authors.html

docs/bootstrap-toc.css

docs/bootstrap-toc.js

docs/docsearch.css

docs/docsearch.js

docs/index.html

docs/link.svg

docs/news/index.html

docs/pkgdown.css

docs/pkgdown.js

docs/pkgdown.yml

docs/reference/AUC.html

docs/reference/COPY_biglasso_main.html

docs/reference/COPY_biglasso_part.html

docs/reference/Extract.html

docs/reference/FBM-class.html

docs/reference/FBM-methods.html

docs/reference/FBM.code256-class.html

docs/reference/FBM.code256-methods.html

docs/reference/Replace.html

docs/reference/Rplot001.png

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docs/reference/asPlotlyText-1.png

docs/reference/asPlotlyText.html

docs/reference/as_scaling_fun.html

docs/reference/big_SVD-1.png

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docs/reference/big_SVD.html

docs/reference/big_apply.html

docs/reference/big_attach.html

docs/reference/big_colstats-1.png

docs/reference/big_colstats.html

docs/reference/big_copy.html

docs/reference/big_cor.html

docs/reference/big_counts.html

docs/reference/big_cprodMat.html

docs/reference/big_cprodVec.html

docs/reference/big_crossprodSelf.html

docs/reference/big_increment.html

docs/reference/big_parallelize.html

docs/reference/big_prodMat.html

docs/reference/big_prodVec.html

docs/reference/big_randomSVD-1.png

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docs/reference/big_read.html

docs/reference/big_scale.html

docs/reference/big_spLinReg-1.png

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docs/reference/big_spLinReg.html

docs/reference/big_spLogReg-1.png

docs/reference/big_spLogReg-2.png

docs/reference/big_spLogReg.html

docs/reference/big_tcrossprodSelf.html

docs/reference/big_transpose.html

docs/reference/big_univLinReg-1.png

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docs/reference/big_univLinReg.html

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docs/reference/big_univLogReg.html

docs/reference/big_write.html

docs/reference/bigstatsr-package.html

docs/reference/block_size.html

docs/reference/covar_from_df.html

docs/reference/get_beta.html

docs/reference/index.html

docs/reference/nb_cores.html

docs/reference/pasteLoc.html

docs/reference/pcor.html

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docs/reference/predict.big_SVD.html

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docs/reference/predict.big_sp_list.html

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docs/reference/reexports.html

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docs/reference/theme_bigstatsr.html

docs/reference/without_downcast_warning.html

docs/sitemap.xml

examples/example-SVD.R examples/example-apply.R examples/example-colstats.R examples/example-corr.R examples/example-crossprodSelf.R examples/example-parallelize.R examples/example-plot-bigSVD.R examples/example-randomSVD.R examples/example-spLinReg.R examples/example-spLogReg.R examples/example-tcrossprodSelf.R examples/example-univLinReg.R examples/example-univLogReg.R

inst/CITATION

inst/WORDLIST

inst/extdata/example.bk

inst/extdata/example.rds

inst/include/bigstatsr/BMAcc-dispatcher.h

inst/include/bigstatsr/BMAcc.h

inst/include/bigstatsr/BMCodeAcc.h

inst/include/bigstatsr/FBM.h

inst/include/bigstatsr/arma-strict-R-headers.h

inst/include/bigstatsr/biglasso/linear.hpp

inst/include/bigstatsr/biglasso/logistic.hpp

inst/include/bigstatsr/biglasso/utils.hpp

inst/include/bigstatsr/colstats.hpp

inst/include/bigstatsr/prodMatVec.hpp

inst/include/bigstatsr/univLinReg.hpp

inst/include/bigstatsr/univLogReg.hpp

inst/include/bigstatsr/utils.h

inst/testdata/before_readonly.bk

inst/testdata/before_readonly.rds

inst/testdata/old-mod.rds

man/AUC.Rd man/COPY_biglasso_main.Rd man/COPY_biglasso_part.Rd man/Extract.Rd man/FBM-class.Rd man/FBM-methods.Rd man/FBM.code256-class.Rd man/Replace.Rd man/asPlotlyText.Rd man/as_scaling_fun.Rd man/big_SVD.Rd man/big_apply.Rd man/big_attach.Rd man/big_colstats.Rd man/big_copy.Rd man/big_cor.Rd man/big_counts.Rd man/big_cprodMat.Rd man/big_cprodVec.Rd man/big_crossprodSelf.Rd man/big_increment.Rd man/big_parallelize.Rd man/big_prodMat.Rd man/big_prodVec.Rd man/big_randomSVD.Rd man/big_read.Rd man/big_scale.Rd man/big_spLinReg.Rd man/big_spLogReg.Rd man/big_tcrossprodSelf.Rd man/big_transpose.Rd man/big_univLinReg.Rd man/big_univLogReg.Rd man/big_write.Rd man/bigstatsr-package.Rd man/block_size.Rd man/covar_from_df.Rd man/get_beta.Rd man/pasteLoc.Rd man/pcor.Rd man/plot.big_SVD.Rd man/plot.big_sp_list.Rd man/plot.mhtest.Rd man/predict.big_SVD.Rd man/predict.big_sp.Rd man/predict.big_sp_list.Rd man/predict.mhtest.Rd man/reexports.Rd man/sub_bk.Rd man/summary.big_sp_list.Rd man/theme_bigstatsr.Rd man/without_downcast_warning.Rd

src/.gitignore

src/AUC.cpp

src/FBM-extract.cpp

src/FBM-replace.cpp

src/FBM-xptr.cpp

src/Makevars

src/RcppExports.cpp

src/arma-prod-self-sub.cpp

src/arma-prod-sub.cpp

src/arma-prod.cpp

src/biglassoLin.cpp

src/biglassoLog.cpp

src/biglassoUtils.cpp

src/colstats.cpp

src/counts.cpp

src/errorMsgs.cpp

src/prodMatVec.cpp

src/transpose.cpp

src/univRegLin5.cpp

src/univRegLog.cpp

src/utils-mat.cpp

tests/spelling.R tests/testthat.R tests/testthat/helper-init.R tests/testthat/test-AUC.R tests/testthat/test-FBM-accessors.R tests/testthat/test-FBM-convert.R tests/testthat/test-FBM-create.R tests/testthat/test-FBM-file.R tests/testthat/test-FBM-permissions.R tests/testthat/test-FBM-replace-df.R tests/testthat/test-SVD.R tests/testthat/test-apply.R tests/testthat/test-bigmemory.R tests/testthat/test-checkArgs.R tests/testthat/test-colstats.R tests/testthat/test-copy.R tests/testthat/test-cor.R tests/testthat/test-counts.R tests/testthat/test-crossprodSelf.R tests/testthat/test-incr-lock.R tests/testthat/test-openmp.R tests/testthat/test-parallelize.R tests/testthat/test-pcor.R tests/testthat/test-prodMat.R tests/testthat/test-prodVec.R tests/testthat/test-randomSVD.R tests/testthat/test-read.R tests/testthat/test-spLinReg.R tests/testthat/test-spLogReg.R tests/testthat/test-tcrossprodSelf.R tests/testthat/test-transpose.R tests/testthat/test-univLinReg.R tests/testthat/test-univLogReg.R tmp-SO/chisq2norm.R

tmp-SO/chisq2norm.cpp

tmp-SO/so1.cpp

tmp-save/AUC.R tmp-save/BM.R tmp-save/FBM.R tmp-save/LDU-decomp.R

tmp-save/PCA.cpp

tmp-save/addInter.R

tmp-save/addInter.cpp

tmp-save/auc-approx-ci.R tmp-save/bench-conv2.Rmd

tmp-save/bench-conv2.html

tmp-save/bench.R tmp-save/bigFmatrix.R tmp-save/biglasso-save.R tmp-save/biglasso.R tmp-save/biglasso/CMSA.R

tmp-save/biglasso/SubIntMatCovAcc.h

tmp-save/biglasso/biglasso.R

tmp-save/biglasso/biglassoLin.cpp

tmp-save/biglasso/biglassoLog.cpp

tmp-save/biglasso/linear.hpp

tmp-save/biglasso/logistic.hpp

tmp-save/biglasso/sparseSVM.R

tmp-save/biglasso/sparseSVM.cpp

tmp-save/biglasso/test-CMSA.R tmp-save/biglasso/test-spLinReg.R tmp-save/biglasso/test-spLogReg.R tmp-save/biglasso/test-spSVM.R

tmp-save/biglasso/utils.hpp

tmp-save/byebyeMKLandEigen

tmp-save/check.R tmp-save/convert-bigmemory.R tmp-save/corr.R tmp-save/crossprodSelf.R

tmp-save/docker-solaris

tmp-save/docker-ubsan-clang

tmp-save/example-randomSVD.R tmp-save/example-univRegLin.R tmp-save/example.reglin-weights.R tmp-save/installs.R tmp-save/multiplot.R tmp-save/parallelRandomSVD1.R tmp-save/parallelRandomSVD2.R tmp-save/plot-AUC.R

tmp-save/prodMatVec2.cpp

tmp-save/randomProjPCA.cpp

tmp-save/randomSVD-1.R tmp-save/randomSVD-reverse.R tmp-save/randomSVD.R tmp-save/randomSVD2-1.R tmp-save/randomSVD2.R tmp-save/randomSVD_cpp.R tmp-save/reglin-weights.R

tmp-save/reglin-weights.cpp

tmp-save/save.cpp

tmp-save/standardize.cpp

tmp-save/subBM-class.R tmp-save/test-check_X.R

tmp-save/test-logit-MM.cpp

tmp-save/test-logit-eigen.cpp

tmp-save/test-randomSVD.R tmp-save/test-univRegLin.R tmp-save/test-warning-downcast.R tmp-save/test.mult.R tmp-save/test.reglin-weights.R

tmp-save/univLogReg-openmp.hpp

tmp-save/univRegLin.R

tmp-save/univRegLin.cpp

tmp-save/univRegLin2.cpp

tmp-save/univRegLin5.R

tmp-save/univRegLin5.cpp

tmp-save/univRegLog.R

tmp-save/univRegLog.cpp

tmp-save/utils-mat.cpp

tmp-tests/ALTREP.R

tmp-tests/AUC.cpp

tmp-tests/FBM/test-FBM-R6.R tmp-tests/FBM/test-R6.R

tmp-tests/FBM/test-access-R6.cpp

tmp-tests/FBM/test-access-RC.cpp

tmp-tests/FBM/test-accessor1.cpp

tmp-tests/FBM/test-accessor2.cpp

tmp-tests/FBM/test-boost-variant.cpp

tmp-tests/FBM/test-boost-variant2.cpp

tmp-tests/FBM/test-code256.cpp

tmp-tests/FBM/test-connect.cpp

tmp-tests/FBM/test-constructor.cpp

tmp-tests/FBM/test-copy.R

tmp-tests/FBM/test-copy4.cpp

tmp-tests/FBM/test-createBM.cpp

tmp-tests/FBM/test-createFile.cpp

tmp-tests/FBM/test-crochet1.R tmp-tests/FBM/test-crochet2.R tmp-tests/FBM/test-crochet3.R tmp-tests/FBM/test-crochet4.R

tmp-tests/FBM/test-default-param.cpp

tmp-tests/FBM/test-getArgs.R tmp-tests/FBM/test-inheritFBM.R

tmp-tests/FBM/test-return-macros.cpp

tmp-tests/FBM/test-seq-len.cpp

tmp-tests/FBM/test-sizeof.cpp

tmp-tests/FBM/test-string-templated.cpp

tmp-tests/FBM/test-type-name.cpp

tmp-tests/FBM/test-type-string.cpp

tmp-tests/FBM/test.bin

tmp-tests/FBM/vec-as-mat.cpp

tmp-tests/X.svd.rds

tmp-tests/add-columns.R

tmp-tests/add-columns.cpp

tmp-tests/arma-test-prodW.cpp

tmp-tests/base-pred-lin.R tmp-tests/base-pred-log-intercept.R tmp-tests/base-pred-log.R

tmp-tests/bench-acc.cpp

tmp-tests/bench-auc.R tmp-tests/bench-auc2.R tmp-tests/bench-bigsnp-prod.R

tmp-tests/bench-conv.cpp

tmp-tests/bench-convert.R tmp-tests/bench-df2mat.R

tmp-tests/bench-eigen-arma.cpp

tmp-tests/bench-fill-covar-w.cpp

tmp-tests/bench-logit-MM.R

tmp-tests/bench-mat2vec.cpp

tmp-tests/bench-prod-openmp.R tmp-tests/bench-prodMat.R

tmp-tests/bench-size-t.cpp

tmp-tests/bench-sp-acc.cpp

tmp-tests/bench-spLin.R tmp-tests/bench-univlinreg-openmp.R tmp-tests/bench-vec-acc.R tmp-tests/benchmark-apply.R tmp-tests/benchmark-cor-par.R

tmp-tests/benchmark-corr.cpp

tmp-tests/benchmark-cprodMat-par.R tmp-tests/benchmark-cross.R tmp-tests/benchmark-crossprod.R tmp-tests/benchmark-mult.R tmp-tests/benchmark-mult2.R tmp-tests/benchmark-multVec.R tmp-tests/benchmark-multVec2.R tmp-tests/benchmark-par-backends.R tmp-tests/benchmark-par-backends2.R tmp-tests/benchmark-prodMat.R tmp-tests/benchmark-randomProjPCA.R tmp-tests/benchmark-scaling.R

tmp-tests/benchmark-sum-sq.cpp

tmp-tests/benchmark-tcrossprod.R tmp-tests/benchmark-transpose.R tmp-tests/benchmark-univ.R tmp-tests/benchmark-univRegLin.R tmp-tests/biglasso-aic.R tmp-tests/debug-CMSA.R tmp-tests/debug-fill-df.R tmp-tests/debug_spRegLog_covar.R tmp-tests/do-tests.R tmp-tests/easy-par.R

tmp-tests/fast-sort-sample.cpp

tmp-tests/faster-IRLS.R tmp-tests/gblup.R tmp-tests/helper-tests.R tmp-tests/incr-lock.R

tmp-tests/int-downcasting.cpp

tmp-tests/int2dbl.cpp

tmp-tests/kPCA.R

tmp-tests/lasso.cpp

tmp-tests/memoize-vec.R

tmp-tests/nlines.cpp

tmp-tests/parallel-extract.cpp

tmp-tests/pcadapt.R tmp-tests/perc-var-PCs.R

tmp-tests/precompute-exp.cpp

tmp-tests/randomProjPCA.R tmp-tests/randomProjPCA2.R tmp-tests/randomProjPCA3.R tmp-tests/randomProjPCA4.R tmp-tests/randomProjPCA5.R tmp-tests/randomProjPCA6.R tmp-tests/randomProjPCA7.R tmp-tests/randomProjPCA8.R

tmp-tests/rcpp-inner-prod.cpp

tmp-tests/rcpp-na.cpp

tmp-tests/rcpp-option.cpp

tmp-tests/rcpp-print-raw.cpp

tmp-tests/size-mat.cpp

tmp-tests/sp-large-effect.R tmp-tests/sp2fbm.R

tmp-tests/stop-is-long.cpp

tmp-tests/string-colstats.cpp

tmp-tests/test-AUC.R

tmp-tests/test-AUC.cpp

tmp-tests/test-AUC2.R tmp-tests/test-PCA.R

tmp-tests/test-RcppSugar.cpp

tmp-tests/test-UUt.cpp

tmp-tests/test-XPtr.cpp

tmp-tests/test-accessor-code.R

tmp-tests/test-assign-FBM.cpp

tmp-tests/test-bool.cpp

tmp-tests/test-check-conv.R tmp-tests/test-check-conv2.R

tmp-tests/test-col-acc.cpp

tmp-tests/test-col-novar.R

tmp-tests/test-conv-fun.cpp

tmp-tests/test-copy-rcpp.cpp

tmp-tests/test-cpp-call-R.cpp

tmp-tests/test-crossprodEigen.R

tmp-tests/test-cubeSummaries.cpp

tmp-tests/test-diff-sizet.cpp

tmp-tests/test-digits.R tmp-tests/test-dsyMatrix.R

tmp-tests/test-eigen.cpp

tmp-tests/test-eigenArma.R tmp-tests/test-eigsSA.R tmp-tests/test-fastMatVec.R

tmp-tests/test-fastMatVec.cpp

tmp-tests/test-fastMatVec2.R

tmp-tests/test-fastMatVec2.cpp

tmp-tests/test-fastMatVec3.R

tmp-tests/test-fastMatVec3.cpp

tmp-tests/test-fastMatVec4.R

tmp-tests/test-fastMatVec4.cpp

tmp-tests/test-fastMatVec5.R tmp-tests/test-fastMatVec6.R tmp-tests/test-fill-from-df.R

tmp-tests/test-fill-from-df.cpp

tmp-tests/test-float.cpp

tmp-tests/test-foreach2.R tmp-tests/test-glmnet.R

tmp-tests/test-include.cpp

tmp-tests/test-include2.cpp

tmp-tests/test-label-plotly.R tmp-tests/test-lasso2011-2.R tmp-tests/test-lasso2011-3.R tmp-tests/test-lasso2011-4.R tmp-tests/test-lasso2011-5.R tmp-tests/test-lasso2011-6.R tmp-tests/test-lasso2011-7.R tmp-tests/test-lasso2011-8.R tmp-tests/test-lasso2011-9.R tmp-tests/test-lasso2011.R tmp-tests/test-lookup.R tmp-tests/test-lookup2.R

tmp-tests/test-macros.cpp

tmp-tests/test-mhtest.R tmp-tests/test-mmap-permissions.R

tmp-tests/test-mult-arma.cpp

tmp-tests/test-multiple-SVD.R tmp-tests/test-new-CMSA.R tmp-tests/test-newBlanczos.R tmp-tests/test-newBlanczos2.R tmp-tests/test-newBlanczos3.R tmp-tests/test-newBlanczos4.R tmp-tests/test-newBlanczos5.R

tmp-tests/test-newSpArma.cpp

tmp-tests/test-nodots.R tmp-tests/test-opti-univRegLog.R tmp-tests/test-ortho.R tmp-tests/test-parApply.R tmp-tests/test-pca-triple.R

tmp-tests/test-pca-triple.cpp

tmp-tests/test-pivoted-lu.cpp

tmp-tests/test-pkg-float.R

tmp-tests/test-prodMat-arma.cpp

tmp-tests/test-randomSVD.R tmp-tests/test-randomSVD2.R tmp-tests/test-randomSVD3.R tmp-tests/test-rankone-updates.R tmp-tests/test-rankone-updates2.R

tmp-tests/test-rcpp-parallel.cpp

tmp-tests/test-read-ped.R tmp-tests/test-read-ped2.R tmp-tests/test-read-ped3.R tmp-tests/test-read.R tmp-tests/test-read2.R tmp-tests/test-recall.R tmp-tests/test-scaled-crossprod.R tmp-tests/test-shiftPCA.R tmp-tests/test-singval.R tmp-tests/test-spLingReg.R tmp-tests/test-spLog-triple.R

tmp-tests/test-spLog-triple.cpp

tmp-tests/test-stats.R tmp-tests/test-sub.R tmp-tests/test-svd-bigdata.R tmp-tests/test-svd-bigdata2.R tmp-tests/test-theme.R tmp-tests/test-univRegLinCovar.R tmp-tests/test-univRegLinCovar2.R

tmp-tests/test-weighted-cprod.cpp

tmp-tests/univLogReg-BFGS2.cpp

tmp-tests/univRegLin3.cpp

tmp-tests/univRegLin4.cpp

tmp-tests/unroll-extract.cpp

vignettes/big-apply.Rmd vignettes/bigstatsr-and-bigmemory.Rmd vignettes/operations-with-scaling.Rmd vignettes/penalized-regressions.Rmd vignettes/read-FBM-from-file.Rmd

privefl/bigstatsr documentation built on March 29, 2024, 3:31 a.m.