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Commit 0ff9f35f authored by Gael's avatar Gael
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README improved

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README.md
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......@@ -57,67 +57,67 @@ The present repository of Cute Little R functions is for beta testing. Ultimatel
| Object analysis | |
| --- | --- |
| **fun_check() | check class, type, length, etc., of objects |
| **fun_secu() | verif that local variables are not present in other envs |
| **fun_info() | recover object information |
| **fun_head() | head of the left or right of big 2D objects |
| **fun_tail() | tail of the left or right of big 2D objects |
| **fun_comp_1d() | comparison of two 1D datasets (vectors, factors, 1D tables) |
| **fun_comp_2d() | comparison of two 2D datasets (row & col names, dimensions, etc.) |
| **fun_comp_list() | comparison of two lists |
| **fun_test() | test combinations of argument values of a function and return errors (and graphs) |
| **fun_check()** | check class, type, length, etc., of objects |
| **fun_secu()** | verif that local variables are not present in other envs |
| **fun_info()** | recover object information |
| **fun_head()** | head of the left or right of big 2D objects |
| **fun_tail()** | tail of the left or right of big 2D objects |
| **fun_comp_1d()** | comparison of two 1D datasets (vectors, factors, 1D tables) |
| **fun_comp_2d()** | comparison of two 2D datasets (row & col names, dimensions, etc.) |
| **fun_comp_list()** | comparison of two lists |
| **fun_test()** | test combinations of argument values of a function and return errors (and graphs) |
| Object modification | |
| --- | --- |
| **fun_name_change() | check a vector of character strings and modify any string if present in another vector |
| **fun_df_remod() | remodeling a data frame to have column name as a qualitative values and vice-versa |
| **fun_round() | rounding number if decimal present |
| **fun_mat_rotate() | 90° clockwise matrix rotation |
| **fun_mat_num2color() | convert a numeric matrix into hexadecimal color matrix |
| **fun_mat_op() | assemble 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_permut() | progressively breaks a vector order |
| **fun_slide() | return a computation made on a vector using a sliding window |
| **fun_name_change()** | check a vector of character strings and modify any string if present in another vector |
| **fun_df_remod()** | remodeling a data frame to have column name as a qualitative values and vice-versa |
| **fun_round()** | rounding number if decimal present |
| **fun_mat_rotate()** | 90° clockwise matrix rotation |
| **fun_mat_num2color()** | convert a numeric matrix into hexadecimal color matrix |
| **fun_mat_op()** | assemble 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_permut()** | progressively breaks a vector order |
| **fun_slide()** | return a computation made on a vector using a sliding window |
| Graphics management | |
| --- | --- |
| **fun_width() | window width depending on classes to plot |
| **fun_open() | open a GUI or pdf graphic window |
| **fun_prior_plot() | set graph param before plotting (erase axes for instance) |
| **fun_scale() | select nice label numbers when setting number of ticks on an axis |
| **fun_inter_ticks() | define coordinates of secondary ticks |
| **fun_post_plot() | set graph param after plotting (axes redesign for instance) |
| **fun_close() | close specific graphic windows |
| **fun_width()** | window width depending on classes to plot |
| **fun_open()** | open a GUI or pdf graphic window |
| **fun_prior_plot()** | set graph param before plotting (erase axes for instance) |
| **fun_scale()** | select nice label numbers when setting number of ticks on an axis |
| **fun_inter_ticks()** | define coordinates of secondary ticks |
| **fun_post_plot()** | set graph param after plotting (axes redesign for instance) |
| **fun_close()** | close specific graphic windows |
| Standard graphics | |
| --- | --- |
| **fun_empty_graph() | text to display for empty graphs |
| **fun_empty_graph()** | text to display for empty graphs |
| gg graphics | |
| --- | --- |
| **fun_gg_palette() | ggplot2 default color palette |
| **fun_gg_just() | ggplot2 justification of the axis labeling, depending on angle |
| **fun_gg_get_legend() | get the legend of ggplot objects |
| **fun_gg_point_rast() | ggplot2 raster scatterplot layer |
| **fun_gg_boxplot() | ggplot2 boxplot + background dots if required |
| **fun_gg_scatter() | ggplot2 scatterplot + lines (up to 6 overlays totally) |
| **fun_gg_empty_graph() | text to display for empty graphs |
| **fun_gg_palette()** | ggplot2 default color palette |
| **fun_gg_just()** | ggplot2 justification of the axis labeling, depending on angle |
| **fun_gg_get_legend()** | get the legend of ggplot objects |
| **fun_gg_point_rast()** | ggplot2 raster scatterplot layer |
| **fun_gg_boxplot()** | ggplot2 boxplot + background dots if required |
| **fun_gg_scatter()** | ggplot2 scatterplot + lines (up to 6 overlays totally) |
| **fun_gg_empty_graph()** | text to display for empty graphs |
| Graphic extraction | |
| --- | --- |
| **fun_trim() | 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 |
| **fun_trim()** | 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() | check if R packages are present and import into the working environment |
| **fun_python_pack() | check if python packages are present |
| **fun_pack()** | check if R packages are present and import into the working environment |
| **fun_python_pack()** | check if python packages are present |
| Print / Exporting results (text & tables) | |
| --- | --- |
| **fun_report() | print string or data object into output file |
| **fun_get_message() | return error/warning/other messages of an expression (that can be exported) |
| **fun_report()** | print string or data object into output file |
| **fun_get_message()** | return error/warning/other messages of an expression (that can be exported) |
## HOW TO LOAD AND MANIPULATE cute_little_R_functions
......@@ -125,25 +125,23 @@ The present repository of Cute Little R functions is for beta testing. Ultimatel
Download the desired Tagged version, never the current master, at https://gitlab.pasteur.fr/gmillot/cute_little_R_functions/-/tags
For that:
For that:
1) Select the desired tagged release
2) Browse files
3) Display the cute_little_R_functions.R as raw file
4) Source the file using the url address. Example
`
source("https://gitlab.pasteur.fr/gmillot/cute_little_R_functions/-/raw/557976d693e37b499b89c76e4b2142846eb89d5b/cute_little_R_functions.R")
`
1) Select the desired tagged release
2) Browse files
3) Display the cute_little_R_functions.R as raw file
4) Source the file using the url address. Example:
`source("https://gitlab.pasteur.fr/gmillot/cute_little_R_functions/-/raw/557976d693e37b499b89c76e4b2142846eb89d5b/cute_little_R_functions.R")`
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_info`.
1) Either read the cute_little_functions.docx (or open the cute_little_R_functions.R file).
2) Or in the R/RStudio console, type the name of the function without brackets. Example : `fun_info`.
## VERSIONS
......@@ -370,12 +368,9 @@ fun_refactorization()
### v1.3
Everything
1) fun_1D_comp() function improved: provide the common elements, common names and common levels if exist
### v1
Everything
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