Changes in Version 0.99.0 (2020-07-15) + Package prepared for submission to Bioconductor + Updated to coding practices + No Biocheck Errors + Updated imports and examples Changes in Version 0.99.1 (2020-08-06) + Responded to comments from Bioconductor reviewer + DESCRIPTION + Moved `tibble` and `shiny` to imports + Vignettes + Made installation section + Added table of contents + Updated vignette text to agree with code + Included sessionInfo() + R code for accesing a website. + Reduced number of lines >80 + Reduced number of indents not multiples of 4 spaces Changes in Version 0.99.2 (2020-09-02) + R code + Changed high stringency to include Enhanced and Supported removing Approved Changes in Version 1.0.0 (2020-10-28) + Officially added to Bioconductor Changes in Version 1.0.1 (2020-11-20) + testthat() HPA_data_downloader.R failed due to spelling change + HPA changed "unfavourable" to "unfavorable" + The testthat() has been changed to reflect their change + More updates soon after all reviews from F1000 are in Changes in Version 1.0.2 (2021-25-20) + Changed section of code crashing due to dplyr update. Changes in Version 1.0.3 (2021-02-03) + Changed read.table() in HPA_data_downloader.R to data.table's fread() Changes in Version 1.0.4 (2021-2-17) + The first update in response to F1000 comments + Added dating arguments to HPA_data_downloader + Now when you have save_file set to true, the file will be stamped with the date it was downloaded. This allows for reproducible access tot he file you created. + To deal with dated files we now have the arguments `version_date_normal` and `version_date` cancer, which allows users to select which downloaded HPA data they want to use based on the date of downloading. The default to "last" which will search for the latest version of the files in the `save_location` + The last addition is `force_download`, an argument that will overide the function's default usage of the local files in case you want to download a more recent version of the HPA data. + Change to HPAStainR and by extension shiny_HPAStainR + Added Fisher's Exact Test to HPAStainR's main function + Due to the inconsistency that exists in using simulated p-values in `chisq.test` the default new test if Fisher's exact and an argument `test_type` has been added so users can pick between the two. + Changed the output of the p-values to numeric instead of a character. Changes in Version 1.2.1 (2021-6-9) + Caught an error where not having `Not detected` column breaks the function