2013-12-5 Youyi Fong and Krisz Sebestyen * create package 2014-4-1 Youyi Fong * change .C to .Call 2014-7-1 Krisztian Sebestyen * fixed the weighted hamming and ibs kernel code both in R and C (typo in the paper) * separate .Call from native C code in kernels.c/h and matrix.c/h so that C code may be included in other packages without having to include Rinternals.h library (i.e. SEXP stuff) - created files Call_kernels.c and Call_matrix.c - renamed all C functions called via .Call to 'Call_funcname' * updated runit.kernel.R since ibs() has changed * added rrbind(),rcbind(),upper.trap(),lower.trap() to matrix2.R * with .Call I can pass a NULL pointer to C hence I can use more natural 'NULL' logic in C in many functions 2018.07.01 * Add %.% and deprecate %+% because %+% is also defined in ggplot2 for adding a comment to plot * Replace %+% by %.% throughout 2018.10.17 * Modify get.sim.res to handle the case when the file contains a single value * Fix a bug in mytex that happens when saving to the current directory * Make getFormattedSummary more flexible by allowing different paramemters to be printed with different number of significant digits * Update mypairs to generate a ladder plot 2019.01.18 * Fix an error in fixedef.lm 2019.08.02 * Print dir if get.sim.res throws an error due to empty dir 2019.10.14 * Fix a bug in mytex that occurs when writing a list of tables and the row names have duplicates 2019.11.13 * add paired option to myboxplot.list to allow paired Wilcox test 2020.04.11 * Add INT and rank.inv.norm * Enhance cbinduneven so that it works with list of outputs from table() of a single dimension 2020.05.11 * return CI in VEplot as suggested by Betz 2020.06.19 * implement myprint for matrix 2020.08.22 * add marginal.risk 2020.08.26 * add marginal.risk.boot 2020.08.26 * add p.adj.perm 2020.09.02 * add binaryloess 2020.09.16 * change rnorm.cor to rnorm.ar, change function interfact too * make exact suggests not import * fix a bug in formatDouble that drops non-trailing 0s 2020.09.25 * add iorw 2020.10.3 * fix getFixedEf.coxph so that the non-robust p value is correct * add getFixedEf.svycoxph 2020.10.12 * freeze for CoVPN work 2020.11.5 * modify getFormattedSummary 2020.11.16 * update marginal.risk to work with model fits from both lm and svyglm for the marker model 2020.11.19 * add marginal.risk.cat 2020.11.19 * add marginal.risk.cont 2020.11.24 * fix marginal.risk.boot 2020.12.2 * remove marginal.risk functions to a new package 2020.12.24 * add get.kfold.splits 2020.12.29 * update corplot.formula: change main 2020.1.4 * Update getFixedEf 2020.1.11 * Update getFormattedSummary 2020.2.2 * Update mymatplot 2020.2.13 * Update getFormattedSummary 2020.3.9 * Add date to Description 2020.4.13 * Add add.loess to corplot 2020.5.7 * Add support for longtable to mytex 2020.6.16 * Update getFormattedSummary on how p values are reported when it is below a threshold 2021.10.27 * Add split functions 2021.04.05 * Change F77 call to be more portable 2022.07.17 * Add predict.competing.risk 2022.08.02 * Add imaging_spatial_analysis 2022.09.17 * Update manual for predictCompetingRisk 2023.02.02 * Fix typo in ?prc2 2023.04.24 * Add dec_to_binary and cove.boost.collapse.strata 2023.04.26 * Add marker.name.to.assay and put this function and cove.boost.collapse.strata in for_correlates_repos.R 2023.05.31 * Bug fix p.adj.perm from Sue Li 2023.06.05 * Remove trim function, which is also present in glue package 2023.06.10 * update pcr2 to handle the situation when there are no competing events 2023.06.11 * add trim back because glue is not as good as paste0, no better to have trim in kyotil so that there is no need to load glue just for trim 2023.06.12 * update pcr2 2023.06.13 * make myfigure and mytex silent by default 2023.06.15 * when there are no cases of interest, return NA 2023.07.19 * update cove.boost.collapse.strata 2023.07.20 * make ph2 factor in cove.boost.collapse.strata 2023.11.22 * move auc functions from aucm to kyotil