#### DESCRIPTION Cute Little R Functions contains 32 functions for R/RStudio that facilitate basic procedures in 1) object analysis, 2) object modification, 3) graphic handling and 4) log file management. The function names are: ## Object analysis fun_param_check() #### Checking class, type, length, etc. of objects fun_object_info() #### Recovering object information fun_1D_comp() #### comparison of two 1D datasets (vectors, factors, 1D tables) fun_2D_comp() #### comparison of two 2D datasets (row & col names, dimensions, etc.) fun_2D_head() #### head of the left or right of big 2D objects fun_2D_tail() #### tail of the left or right of big 2D objects fun_list_comp() #### comparison of two lists ## Object modification fun_dataframe_remodeling() #### remodeling a data frame to have column name as a qualitative column and vice-versa fun_refactorization() #### remove classes that are not anymore present in factors or factor columns in data frames fun_round() #### Rounding number if decimal present fun_90clock_matrix_rot() #### 90° clockwise matrix rotation fun_num2color_mat() #### Conversion of a numeric matrix into hexadecimal color matrix fun_by_case_matrix_op() #### assembling of several matrices with operation fun_mat_inv() #### return the inverse of a square matrix fun_mat_fill() #### fill the empty half part of a symmetric square matrix fun_consec_pos_perm() #### progressively breaks a vector order ## Graphics management fun_window_width_resizing() #### window width depending on classes to plot fun_open_window() #### Open a GUI or pdf graphic window fun_prior_plot() #### Graph param before plotting fun_post_plot() #### Graph param after plotting fun_close_specif_window() #### Closing specific graphic windows ## Standard graphics fun_empty_graph() #### text to display for empty graphs ## gg graphics fun_gg_palette() #### ggplot2 default color palette fun_gg_scatter() #### ggplot2 scatterplot + lines (up to 6 overlays totally) fun_gg_bar_mean() #### ggplot2 mean barplot + overlaid dots if required fun_gg_heatmap() #### ggplot2 heatmap + overlaid mask if required fun_gg_empty_graph() #### text to display for empty graphs ## Graphic extraction fun_var_trim_display() #### Display values from a quantitative variable and trim according to defined cut-offs fun_segmentation() #### Segment a dot cloud on a scatterplot and define the dots from another cloud outside the segmentation ## Import fun_pack_import() #### Check if R packages are present and import into the working environment fun_python_pack_import() #### Check if python packages are present ## Exporting results (text & tables) fun_export_data() #### Print string or data object into output file #### LICENCE This package of scripts can be redistributed and/or modified under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version. Distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details at https://www.gnu.org/licenses. #### CREDITS Gael A. Millot, Hub-C3BI, Institut Pasteur, USR 3756 IP CNRS, Paris, France #### HOW TO USE IT Download the desired Tagged version, never the current master. Source the cute_little_R_functions.R into R/RStudio to have the functions available in the working environment. Description of the functions is at the beginning of the function body. To obtain it: Either read the cute_little_functions.docx (or open the cute_little_R_functions.R file). Or in the R/RStudio console, type the name of the function without brackets. Example : fun_object_info. #### FILE DESCRIPTIONS cute_little_R_functions.R file that has to be sourced cute_little_R_functions.docx just for easier code reading examples_alone.txt compile all the examples of the functions into a single file #### WEB LOCATION Check for updated versions (most recent tags) at https://gitlab.pasteur.fr/gmillot/cute_little_functions/tags #### WHAT'S NEW IN ## v6.0.0 1) name of functions changed: fun_rounding() fun_round() fun_hexa_hsv_color_matrix() fun_num2color_mat() fun_graph_param_prior_plot() fun_prior_plot() fun_feature_post_plot() fun_post_plot() 2) new functions added: fun_mat_fill() fun_consec_pos_perm() fun_empty_graph() fun_gg_palette() fun_gg_scatter() fun_gg_bar_mean() fun_gg_heatmap() fun_gg_empty_graph() fun_segmentation() fun_pack_import() fun_python_pack_import() 3) text error modified in fun_2D_head() and fun_2D_tail() 4) in fun_param_check(): (1) has now the class = "vector", (2) argument fun.name added 5) writiing and debugging message errors improved in all the functions ## v5.1.0 1) bugs corrected in fun_2D_head() and fun_2D_tail() functions ## v5.0.0 1) fun_2D_head() function added 2) fun_2D_tail() function added 3) argument "noquote" added in fun_export_data() ## v4.9.0 1) fun_mat_inv() function added ## v4.8.0 1) magnific argument removed in fun_feature_post_plot() because no need anymore ## v4.7.0 1) check of numeric arguments: class = "numeric" -> mode = "numeric" to allow for integers values in these arguments ## v4.6.0 1) fun_by_case_matrix_op() added ## v4.5.0 1) fun_open_window() improved to deal with Linux systems 2) fun_graph_param_prior_plot() improved to deal with Linux systems ## v4.4.0 1) fun_dataframe_remodeling() now add a ini_rowname column in the output data frame when it is coherent and when initial row names are available (not NULL) ## v4.3.0 1) fun_object_info() now manages object class "ordered" "factor" ## v4.2.0 1) bug in the fun_2D_comp() function fixed ## v4.1.0 1) text.corner replaced by corner.text everywhere ## v4.0.0 1) fun_var_trim_display() function added 2) fun_feature_post_plot() function now provides additional coordinates when there are margins between the figure region and the device region 3) fun_2D_comp() function now provide the common row and column names, and a bug fixed in the detection of identical row or column content 4) error messages now mention the function that generates this message ## v3.1.0 1) fun_export_data() function modified: argument data cannot be NULL 2) the debugging line containing r_debugging_tools-v1.2.R updated for the new position of this script ## v3.0.0 1) cute_little_functions.R renamed cute_little_R_functions.R 2) function fun_dataframe_flipping() has been renamed fun_dataframe_remodeling() 3) more examples added, also draws added in the .docx file for fun_dataframe_remodeling() ## v2.0.1 1) functions that use other functions from this toolset now check if these required functions are indeed present in the R environment ## v2.0.0 1) fun_feature_post_plot() function improved: Now independent magnification for x axis/labels and y axis/labels. BEWARE: argument names have been modified 2) Bug corrected in fun_graph_param_prior_plot() function 3) Bug corrected in fun_refactorization() function ## v1.3 1) fun_1D_comp() function improved: provide the common elements, common names and common levels if exist