Man pages for kklot/ktools
Miscellaneous tools
| add | Convinient for R4 pipe |
| AddAlpha | AddAlpha |
| adj_to_precision | Generate precision matrix for spatial model from matrix of... |
| allot | Right assign to using with pipe |
| AR2_Q | Autoregressive order 2 - AR(2) precision matrix generator |
| as_field | Convert a R list of variable to mongo fields |
| as_or | Convert an R named list to mongo 'OR' |
| as_query | Convert a R named list of variable and condition to mongo... |
| AUC | AUC calculation |
| bang | table that take pipe input |
| barplott | Plot bar chart in terminal |
| bg | Plot text |
| bracket | Brackets |
| browse | Show data frame in browser |
| cd | replicate some features of bash cd |
| char | Convenient create vector of character without the need to... |
| compute | Do calculation, automatically converting type |
| corfrankCopula | Frank copulas parameter to kendall tau or spearman rho |
| crash_test | Crash testing an expression |
| cutat0 | Cut at zero |
| d2r | Date to Rate |
| date_to_cmc | CMC from R date |
| dfrankCopula | Frank copulas density |
| dgumbelCopula | gumbel copulas density |
| double_logistic | Double logistic function |
| double_logistic2 | Double logistic with three bounds |
| download | Download with httr |
| dskewlogis | Skew-log-logistic distribution |
| dttb | Display HTML with common options |
| efunc | To use in in tryCatch |
| eval_text | Evaluate a text as expression |
| facet_unwrap | Unwrap a facet_wrap plot |
| f_glogisI | Generalized logistic type I density |
| file_name | clean file name |
| fill_polygon_h3 | Fill 'sf' with 'h3' indexes |
| find_consecutive | Find consecutive (by one unit only) |
| findInterval2 | findInterval and return factor with label |
| find_in_zip | find filename matching regex in a zipped file |
| format_pvalue | format p-value for publishing |
| fracpoly | Fractional polynomial |
| fractional_poly | Find best fit fractional polynomial using GLM |
| fwrite_bz2 | Write bzipped data file |
| gen_brewer | genCols |
| gen_colors | genCols |
| genR | Generate random walk precision structure matrix |
| gen_rw | Simulated random walk |
| genSmooth | genSmooth |
| gen_widths | Generate widths for geom_tile with unevenly space x-axis |
| getcoding_readstata13 | Read variable coding of a variable from stata file |
| getmeta_readstata13 | Read meta data from stata file |
| get_report | Get values of summary('sd_report') by name |
| ggcol | Default column plot for ktools |
| gg_group | Prepare ggplot by groups |
| gghist | Default histogram plot for ktools |
| gg_img | Plot a 2D matrix as image |
| gg_mat | Plot a 2D matrix as lines |
| ggpie | Default pie plot for ktools |
| grapes-notin-grapes | Not in |
| grapes-out-grapes | Not in = out |
| grept | Find text match regex with grep with some tailored options |
| hex_fill | Find most frequent occurrences in the neighbors and fill in... |
| histt | Plot density in terminal |
| hlegend | hlegend |
| hline | hline |
| image2 | Auto sort the columns to plotable matrix |
| invert | Invert |
| is_negative | Is negative |
| iso2name | shorthand ISO to country name from countrycode package with... |
| is_sorted | is sorted? |
| is_windows | Check if system is Windows |
| join_list | Join elements of list a from list b |
| Kaxis | Kaxis |
| Kgrid | Kgrid function |
| kill | Kill R session |
| KLD | Kullback Liebler |
| Kolygon | Kolygon |
| kompile | Compile TMB with ktools header |
| kring_smooth | K-ring smoothing |
| kut | Cut but automatically include min and max data's value |
| labelOutlier | labelOutlier |
| label_table | Generate lookup table for haven read spss/stata |
| list_name_to_column | Add nested list name to nested data column |
| list_zip | List zip file contents with unzip or unar (default) |
| load_pkg | Wrapper of suppress message library loadings |
| logistic | Logistic shape generator |
| logplot | logplot |
| log_prec_prior | Log penalized complexity precision prior like INLA's internal |
| long_matrix | Matrix with names to long table with rowname as column |
| lsSize | lsSize |
| MakeADFunSafe | MakeADFun safely terminated if there is a bound error |
| make_re_matrix | Generate model matrix for random effect, such as AR model |
| map | Leaflet map wrapper |
| meanstat | format cross table for publushing |
| month_year_to_cmc | Month year to cmc |
| more | Pager view similar to more |
| most_frequent | Find most frequent occurrences with rle |
| mustats_3plus | format cross-IQR by groups (>2) for publishing |
| name2iso | shorthand country name to ISO from countrycode package with... |
| name2list | Convert named vector to a named list |
| name_collection | Collection of naming, renaming functions, values |
| named_list | Constructing list with named from object name |
| nan_rm | Remove NA/Inf from objects |
| napply | n(amed)apply: lapply but automatic add names to output |
| nullspace_penalty | Null-space penalty of the precision matrix |
| n_unique | Number of unique elements in a vector |
| open_file | Open file with system's program (on MAC) |
| orderBy | Order data frame |
| p_adj | Adjusted prevalence using sensitivity and specificity |
| pfrankCopula | Frank copulas prob |
| pfu2TCID50 | PFU 2 2 TCID50 |
| pgumbelCopula | gumbel copulas prob |
| pick | Pick element in vector base on regex |
| plotb | blankplot |
| PlotData | PlotData function |
| ploth | hplot |
| plotlnp | bothplot |
| plotm | Plot text |
| plotp | pointplot |
| plot_segment | Plot segments |
| plot_smooth | lo |
| plott | Plot text |
| plottc | plot in terminal with color |
| prec2sd | precision to sd |
| put | put |
| py2r | Convert ipynb to Rmarkdown or R script |
| quantile95 | quantile 95% with name |
| quartz_off | Print ggplot off-screen |
| query_label | Query variable and labels from data read with haven |
| query_name | Query variable and labels from data read with haven |
| query_readstata13 | Query data frame read with readstata13 |
| range2seq | Range to sequence |
| range_label | Range label like 2019-20 |
| R_binary | Find R binary depending on systems |
| rBind | Binding rows, auto set colnames |
| read_in_zip | Read a file match a pattern inside a zip file |
| readnbind | Read and bind |
| rebase | Rebase for indexing/modellin |
| recode_if | recode keeping original data when conditions have NA |
| reexports | Objects exported from other packages |
| refactor | Help to refactor the factor easier |
| remove_consecutive | Remove consecutive (by one unit only) |
| remove_text | Remove text from strings with gsub |
| rename_col | Rename a column |
| resize | dev.new with named width and height |
| rmvnorm_sparseprec | Sample multivariates with precision matrix |
| row2id | rownames to id |
| s2n | s2n - String to numeric |
| sample_tmb | Sample TMB fit |
| save_jpg_for_submission | ggplot to 300 dpi JPG for article submission |
| savePDF | savePDF function |
| savePNG | savePNG function |
| savePs | savePs function |
| save_to | create dir, change to, and return the name |
| sbatch | Submit SLURM job |
| scale_inverse | Get original value before scale |
| scale_to_n | scale_to_length |
| scale_to_range | scale to defined range |
| screen_to_file | Open output of a function in a new text file (in default... |
| sd2prec | sd to precision |
| S_glogisI | Generalized logistic type I survival |
| sizing | Sizing the figure in Python notebook IRKernel |
| skim | Simpler data overview |
| slurm | Prepare the R script and sh file to submit to HPC managed... |
| snaking | Convert to snake case from package snakecase |
| square | Square |
| squeue | Monitor SLURM queue |
| STATA_date_to_date | STATA long date format to R date |
| strip_U | Strip unicode characters |
| surv_split | Split time to interval for survival model - improved |
| table | tabulate a variable with pipe |
| table_as_html | View table as html |
| tabstat | format cross-table for publishing |
| take_note | Write a note to file |
| tbl_AB | Tabulate 2 variables with count and percentage |
| tmb_compile_and_load | TMB compile and load |
| tmb_fixit | TMB fix parameters |
| tmb_ICs | Calculate Information criteria for TMB model |
| tmb_load | Basic loading of TMB model with basic name handling,... |
| tmb_unload | Unload loaded TMB dynamics |
| today | Today date |
| unar | Unzip file with unar instead of unzip |
| unkount | Uncounting data frame using a weights |
| unroll_zip | Unroll zipped files |
| var_ll | Variance of adjusted prevalence using sensitivity and... |
| vline | vline |
| wait | wait function |
| which_empty | Find empty element in a nested list |
| which_in | Find element in a vector and extract name not indice |
| which_not | Find element not in a vector and extract name not indice |
| xyline | xyline |
