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Added function n_rsi

This commit is contained in:
2018-05-02 14:56:25 +02:00
parent e5ae7b98ac
commit c0fc82c794
17 changed files with 292 additions and 171 deletions

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#### New
* Full support for Windows, Linux and macOS
* Full support for old R versions, only R-3.0.0 (April 2013) or later is needed (needed packages may have other dependencies)
* Function `n_rsi` to count cases where antibiotic test results were available, to be used in conjunction with `dplyr::summarise`, see ?rsi
* Function `guess_bactid` to **determine the ID** of a microorganism based on genus/species or known abbreviations like MRSA
* Function `guess_atc` to **determine the ATC** of an antibiotic based on name, trade name, or known abbreviations
* Function `freq` to create **frequency tables**, with additional info in a header
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* New print format for `tibble`s and `data.table`s
#### Changed
* Fixed `rsi` class for vectors that contain only invalid antimicrobial interpretations
* Renamed dataset `ablist` to `antibiotics`
* Renamed dataset `bactlist` to `microorganisms`
* Added common abbreviations and trade names to the `antibiotics` dataset