Changes in version 1.7.4 (2026-01-29)                  

    o   futile.logger package was replaced with logger

                        Changes in version 1.7.2                        

    o   Minor changes for compatibility with R v4.4.

    o   LOG10P will be converted to PVALUE, if not in the input file.

                 Changes in version 1.6.4 (2023-05-15)                  

    o   Minor changes for compatibility with R v4.3.

    o   Main function names were renamed by replacing dot with underline.

                 Changes in version 1.6.0 (2022-11-22)                  

    o   Due to problems with Java and rJava, XLSX package was replaced by OPENXLSX.

                        Changes in version 1.5.7                        

    o   Some minor debugging was done.

                       Changes in version 1.4.8.4                       

    o   File order can be set with a string parameter.

    o   Allele frequency scatter plot is replaced with Smooth Scatter.

    o   Search of variants in the reference dataset is improved.

                       Changes in version 1.4.8.3                       

    o   A new column containing CHR:POS:EFF_ALL_OTHER_ALL can be added to the output files.

                 Changes in version 1.4.8 (2020-07-28)                  

    o   Messages to the terminal can be supressed using `verbose` parameter.

    o   New columns can be added to the output files indicating multi-allelic or HQ variants.

    o   Allele-frequency and RSID from the reference file can be added to the result files.

                Changes in version 1.4.7.1 (2020-05-11)                 

    o   Summary statistics are generated seprately for HQ variants.

                 Changes in version 1.4.7 (2020-04-22)                  

    o   data.table package (1.12.8) is now capable of directly writing gz files. This will be used for saving output zipped files.

    o   R.utils package is now added to dependecy list. This will be used to read gz files with data.table::fread() function.

                         Changes in version 1.4                         

    o   Allele matching for Insertion/Deletion multi-allelic variants were improved.

    o   Report files were edited.

    o   Minor bug fixes.

    o   sample.inspector function is renamed to demo.inspector.

                         Changes in version 1.3                         

    o   S4 object system is used for defining classes and main functions. Package is now much more disciplined compared to the previous version which was in S3.

    o   Printing of all log messages to the terminal can now be disabled by using suppressMessages() function.

    o   Minor improvement in code.

                  Changes in version 1.2 (2019-09-25)                   

    o   "parameters" section in the configuration file was changed to "input_parameters"

    o   Configuration file sections are checked for consistency

    o   Output file names are changed from SNPs to vars. This is because they might contain INDELs too.

    o   Merging of data sets are done with data.table method instead of merge() function.

    o   Vignette is updated.

    o   Added compatibility for older versions of R.