# inti4improve (In progress)

  - Improve PCA supplementary variables
  - Select the dimension in PCA
  - Sub module for PCA with variable contribution and dimension correlation
  - Dashboard for Tarpuy experiment progress

# inti 0.7.1

- Exclude functions from rticle using articul8
- Improve function `rticle()` to render native .md from google docs
  - Include cross references: Tables & Figures
- Udpate `scihub()` function
  - analysis.qmd template
  - article.qmd template
- Use cli package for apps message
- Update Tarpuy and include new functions
  - design_augented
  - design_split
  - design_split_rcbd
  - plot_**_design

# inti 0.7.0

- Include new function `rticle()` to render native .md from google docs to article
- Update Tarpuy
  - Include matrix for experiments
  - CRediT – Contributor Role Taxonomy

# inti 0.6.92

- Improve `scihub()` project
  - Include link for manuscript template
  - Update ReadMe.qmd

# inti 0.6.91

- Improve templates for `scihub()` for works from bash
- Update color pallet to Brewer
  
# inti 0.6.9 

- Improve templates for `scihub()`
- `H2cal()` was updated to include factors as formula
- Fix error in gdocs2qmd

# inti 0.6.8

  - Avoid label overlapping in the significance
  - Update pkgdown web page
  - Fix table export in `gdocs2qmd()`
  - Update ANOVA table for kable()
  - Exclude rmarkdown template ==> update to scihub research repository
    - Include Addins: `SciHub`
  
# inti 0.6.7

 - Rticles
  - Fix table conversion when only is present one table
 - Yupana
  - Avoid different bar widths
  - New project template info
  - Increase y limits for better error visualization
  - Re arrange statistic information 
  - Repare agricolae table summary anova
- Tarpuy
  - Update budget template
  - Update experimental plan information
  
# inti 0.6.6

- Package
  - New function related `outliers_remove()` => "`remove_outliers`" to work with formula
  - New function related `plot_diag()`  => "`plot_diagnostic`" to work with formula
  
- Rticles
  - Fix Tables and Figures order in final document

- Tarpuy
  - Change name of the trait tab from `abbreviation` to `trait`
  - Update traits tab for include two formats: `date` and `mcategorical`
  - Fix sort of the traits in field book app
  - New option for generate the qr-code for each plot
  
# inti 0.6.5

- Package
  - Include Addins for Google authentication and renew process

- Rticles
  - Fix title position in article
  - Fix figure caption and cross reference

# inti 0.6.4

- Update bootstrap in apps
- Tarpuy:
  - Alows to exclude or delete `{when}` or `{sample}` colums
  - Allow `defaultValue` for traits
- Rticles
  - Include images using markdown syntax `![]()`
  
=> Fix if "defaultvalue" is in the trait table

# inti 0.6.3

- `gdocs2qmd()`
  - change params: template ==> theme
  - reference-doc: style_rticle.docx
- Tarpuy
  - Field book design allows different number of rows  
  - Design without replication (observation plots) ==> `design_noreps()`
  - Fix traits name order

# inti 0.6.2

- `gdocs2qmd()`
  - Bug with: "```Unknown element type at this position: UNSUPPORTED```"
  - The function works for articles and thesis
  - Include the cover page using a table
  - Include R markdown templates from RStudio 
  - Rticles vignettes updated

# inti 0.6.1

- Tarpuy: 
  - Include google sheet and docs in PLEX
  - Allow empty rows and without filling
  - Drop values in sheet traits with "X" 
  - Only generate traits sheets
  - Seed is set by default 
  
- Deprecated:
  - include_figure()
  
- New function
  - include_pdf()
  
- gdocs2qmd()
  - Word document with different output structure
  
# inti 0.6.0

- Fix for dev dplyr (Thanks @hadley)
- `tarpuy_plotdesign()` 
  - Autoconvert as factor for plot design
  - Default names in plot to "row" and "columns"
- New function: `design_repblock` for "rcbd", "crd" for any factor number
- Yupana create by default the sheet `locale = "en_US"` to use the decimal point
- `yupana_mvr` allow to select specific numeric variables
- `tarpuy_varlist` adapted to field book app
- Tarpuy: new module for use the information in Field Book app <https://play.google.com/store/apps/details?id=com.fieldbook.tracker>
- Rename function: `tarpuy_varlist` ==> `tarpuy_traits`

# inti 0.5.8

- `gdocs2qmd(format)` allow transform to quarto or Rmarkdown format
- Update RStudio download link to posit

- Yupana - fieldbook module:
  - [X] Use "_" or "." to separate the traits factors: `yupana_reshape()`
  - [X] Load and Save in a specific sheet

# inti 0.5.7

- Update functions bookdown to quarto: 
  - `figure2rmd()` ==> `figure2qmd()`
  - `table2rmd()` ==> `table2qmd()`
  - `gdocs2rmd()` ==> `gdocs2qmd()`
 - Fix `plot_raw()`: "length(x) = 2 > 1' in coercion to 'logical(1)"
 - Update `jc_tombola()`
 - `outliers_remove(drop.na = FALSE)` avoid drop NA values by default 
 - `H2cal()` outliers are changed to NA in the data.frame
 - `yupana_mvr()`: update function for correlation and PCA
 - Yupana: update multivariate analysis

# inti 0.5.6

- Package: `web_table()`
  - `autoWidth = TRUE` 
  - `columnwidth` argument
  - `width` argument
- Fix `plot_smr()`: "length(x) = 2 > 1' in coercion to 'logical(1)"
- New function: `split_folder()`
- Yupana: add `scale` and `method` in correlation plot

# inti 0.5.5

- Yupana: update `yupana_import()` using `if_any()` instead `across()`
- Tarpuy: in `dsg` the column `qr` ==> `barcode`
- Tarpuy: update sheets names in `intro` section
- Tarypu: export field-book in specific sheet
- Tarpuy: select sheet for field-book sketch
- Tarpuy: create field-book only with the factor list
- Tarpuy: column with [] in `design` are omitted in the field-book generation
- CRAN comments: if (class(model) == "lmerMod") => if ( is(model, "lmerMod") 

# inti 0.5.4

- `outliers_remove()`: change `cbind()` by `cbind.data.frame()`.
- Fix apps auth.
- Thanks to Uwe Ligges to allow consecutive CRAN updates.

# inti 0.5.3

- Complete location name in experimental information.
- Avoid labels in axis and legend using `""`.
- Update vignettes using bookdown.
- Fix table summary in `H2cal()`.
- Update diagnostic plot in `plot_diag()` to lm and lmerMod.
- Update code for logIn modules in apps.
- Update correlation graph in yupana.

# inti 0.5.2

- *Package* 
  - Fix CRAN comments
  - Fix path to install Tarpuy dependencies
  - Include huito logo in apps
  - Fix factors in Tarpuy field-book export
  - Update code from `tarpuy_design()`
  - Update barcode column for split using "_"
  - Update function `tarpuy_plex()`
 
# inti 0.5.1

- *Package* 
  - `H2cal()`: BLUEs from H2cal may be wrong if other fixed effects in the model (#10).
    - Thanks Jim Holland (@ncsumaize) for the suggestion to improve the function.
  - New functions: `gdoc2rmd()`, `table2rmd()`, `figure2rmd()`
    - Use Articul8 Add-ons from Google docs to build Rticles
  - Update pkgdown

# inti 0.5.0

> Changes are incompatible with the old versions.

- *Package* 
  - `yupana_export_smr` ==> `yupana_export()`
    - Extract all the information from `yupana_analysis`
  - `yupana_import_smr` ==> `yupana_import()`
    - Import information from the web and `yupana_analysis`
  - Update function `H2cal()`

- *Yupana*
  - Include statistics and anova table in export results
  - Clean headers in export data, exclude "{}"
  - Update load/save interface
  
- *Tarpuy*
  - Variable list only include arguments with {}
    - You can exclude: {evaluation} or {sampling}

# inti 0.4.4

- *Package* 
  - `jc_tombola()`
    - Update function and selection paper by meeting
  - `yupana_analysis()`
    - Include last_factor selection
  - `yupana_mvr()`
    - Function not need last_factor
  - Include package version in the apps
  - Fixed navigation bar in the apps
    
- *Yupana*
  - PCA for individual in the bottom
  - Include version in the output table
  - Dimension for plots in multivariate analysis

# inti 0.4.3

- *Yupana*
  - Show equation with adjusted R in scatter plot graph
  - `sig` include all the variables from the summary table
  - In plots if the number of reps is 1 the `sig` and `error` is "none"

# inti 0.4.2

- *Package* 
  - Include info `plot_smr()` and `plot_raw`
  - `plot_smr()`
    - Delete legend border
  - Transparent logos background
  - New vignette for coding with yupana
  - Update Rticles and Books template
  - Fix `web_table()` to export in xlsx
  - `plot_raw()` with scientific notation in labels
  - Include new data set `potato`

- *Yupana*
  - Legend position load correct
  - Headers with [] are excluded in the analysis
  
> Agradecimiento a Pedro Barriga por sus sugerencias para mejorar `yupana()`

# inti 0.4.1

- *Package* 
  - `plot_smr()`
    - Add significance font size
  - `plot_raw()` 
    - Allows vector with colors for plots
    - Include "scatter plot"
  - `H2cal()` include trial option for MET
  - New video for the version > 0.4.1
  
- *Yupana*
  - Add equations in regressions plot
  - Include scatter plot in "Exploratory" module

# inti 0.4.0

> Changes incompatible with the old versions.

## Major changes

- *Rticles*
  - Deprecated: `create_rticles()` & `rticles()`
  - Deprecated shiny app: `rticles`
  - Now you can create your docs using Rmarkdown templates
    - Rticles
    - Books
  - Vignette for explain the dependencies to use rticles
    
- *Yupana*
  - Styled messages
  - New module: `Exploratory`
  - Update in the modules
    - No need `fbsm`
    - Reactivity in the analysis
  - Export model information
  - Overwrite graph info
  - Design with 3 factor use `facet_grid()`
  - Allow import/export information for plots
  - Reduce font size in the significance
  
- *Tarpuy*
  - Styled messages
  - Vignette for explain the modules in the app
  - Overwrite fieldbook info
  
- *Package* 
  - New function: `plot_raw()`
    - Box plot graph
  - Update function: `fieldbook_mvr` --> `yupana_mvr()`
    - Can be used independently
  - symbols to internal data
    - Table to create footnotes
  - rename functions
  - Include new logo
  - Vignettes: comparison between `H2cal()` and `asreml`
  - Add data base for MET
  - Logo for the package and apps
  
> Agradecimiento a Khaterine por la idea en el diseño de los logos
    
# inti 0.3.0

- *Yupana*
  - Fix `{arguments}` from `xlimits` to `ylimits`
  - Update tables style
  
- *Rticles*
  - Update template files
  
- *Package* 
  - Vignette for describe the arguments and options in Yupana
  - Delete redundant functions `info_figure()` & `info_grahics()`
  - Update functions: `include_figure()` & `include_figure()`
  - Update function `plot_smr()` include:
    - `xtext`: labels for the x level
    - `gtext`: labels for the group levels

# inti 0.2.0

> Changes incompatible with the old versions.

## Major changes

- *Package* 
  - Arguments changed in the syntax for `fbsm` and `graphics`.
  
- *Yupana*
  - Delete error messages in console when run the app
  - Change dependency: `ggpubr` --> `cowplot`
  - Multivariate analysis need factor levels n>2 
  - Allows copy the `Statistics` table

- *Yupana*
  - Delete error messages in console when run the app
  - fix dates in experiments

- *Rticles*
  - update code for unzip `Articul8` files
  
- *Package* 
  - ´mean_comparison´ update
    - No remove the treatments column
    - Allows plot 3 factors comparison `facet_grid()`
    - New arguments for plot: xlimits, xrotation, dimension, opt
    - Delete redundant arguments; limits, brakes
    - Suggest use "*" instead of ":"
    - Include additional layers to the plot. e.g. `coord_flip()`
    - Save plot dimensions in the exported sheet
  - `web_table` fix resize table in web
  
## Bug fixes

- *Yupana & Tarpuy*
  - add `pkgs.R` file to load dependencies in apps

- *Tarpuy*
  - fix auto-install packages in `inti::tarpuy(T)`

# inti 0.1.3

## Major changes

- *Rticles*
  - update bootstrap
  - include code section

- *Yupana & Tarpuy*
  - google auth verification
  
- *Tarpuy*
  - Include QR code in fieldbook
  
- *Apps*
  - bslib dependence install from CRAN
  - Include video for local installation
  - Suppress messages when load apps

# inti 0.1.2

## Major changes

- *Package* 
  - Exclude package `multtest` from the depends
  - CRAN error: `include_table`
  - Search engine in the web page

# inti 0.1.1

## Major changes

- *Yupana & Tarpuy*
  - now apps work locally
  - update bootstrap
  - update packages dependencies for apps
  
- *Yupana*
  - Graphs: button for generate and refresh graphs
  - Fieldbook: `plot_label` in fieldbook summary for label axis in plots
  - Analysis: export analysis with sheet name
  - Analysis: round digits in export table
  
- *Package* 
  - new functions: `info_figure()` & `info_table()`
  - update pkgdown documentation

## Bug fixes

- *Yupana & Tarpuy*
  - fix problem with 'cloud.json'
  
- *Yupana* 
  - Multivariate: exclude variables without variation in PCA 
  - Multivariate: exclude columns with all NA values
  - Graphs: app not stop if graph arguments are wrong
  - update from observeEvent() --> reactive()
  
- *rticles*
  - update app with the new bookdown release

# inti 0.1.0

- First package release

