Cvasl

Added

* Fifth version of this Python project containing (added to this version):

- work for first long paper in secluded notebooks
= reworked environment to run all pythonharmonizations from venfor in one environment
- change to setup to include vendor

Added

* Fourth version of this Python project containing (added to this version):

- testing has been changed to use pytest ( all unit-test formatted tests will still run)
- testing has been split into two files so CI can run a docker based testing, and a general (multi-os) test
- testing platform (what makes venv + run) switched to tox
- possibility to test notebooks with nbmake module added, but not in CI due to time and data issues
- vendor module of cvasl, harmonization code from outside packages previously without releases, original open licenses copied
- vendor module versions for RELIEF, neurocombat, autocombat, Combat++, covbat and open nested combat

Added

* Third version of this Python project containing (added to this version):

- haromnzation_abstract_one folder to save and make reproducible work for brain mapping abstract
- exact freeze of environment in precise_working_environment

- harmony module for functions related to implementing common harmonization algorithms
- harmony also includes new graphing functions in harmony module to illustrate harmonization effects e.g.
`compare_harm_one_site_violins` and `compare_harm_multi_site_violins`

- updates to seperated module including:
- new functons in seperated to bin data on a continous variable
- generalized functions for k-folding as specific to project in seperated module
- k folding which allows splitting on two variables (one continuous, one categorical) with
`stratified_cat_and_cont_categories_shuffle_split` function

- command-line sex recoding over a folder
- command-line loging of columns over a folder
- command-line loging of columns over a file
- command-line cleaning off unwanted columns run over a folder

Added

* Second version of this Python project to follow the Netherlands eScience Center software development guide, containing (added to this version):

- additional experiments inside harmonization_paper folder
- example of correct format for csv of derived values to use with library

Added

* First version of this Python project to follow the Netherlands eScience Center software development guide, containing (added to this version):

- License
- Notice
- seperate environments for harmonization experiments inside harmonization_paper folder
- notebook showing how showable standard was generated
- file with standard for submitting to package inside researcher_interface folder
- preliminary linear regression models as baseline for brain age models