You can combine @p report_name_has_folder and @p mzTab_filename to obtain filenames which are even more robust to moving around (since they contain infixes of the mzTab filename and the folder), e.g. @em report_HEK293-study_myProjects.html, where the input was mzTab_filename='HEK293-study.mzTab' and folder='c:/somePath/myProjects/'.
getReportFilenames(
folder,
report_name_has_folder = TRUE,
mzTab_filename = NULL
)Directory where the MaxQuant output (txt folder) or the mzTab file resides
Boolean: Should the report files (html, pdf) contain the name of the deepest(=last) subdirectory in 'txt_folder' which is not 'txt'? Useful for discerning different reports in a PDF viewer. E.g. when flag is FALSE: 'report_v0.91.0.html'; and 'report_v0.91.0_bloodStudy.html' when flag is TRUE (and the txt folder is '.../bloodStudy/txt/' or '...bloodStudy/', i.e. './txt/' will be skipped over)
If input is an mzTab, specify its name, so that the filenames can use its basename as infix E.g. when mzTab_filename = 'HEK293-study.mzTab' then the output will be report_HEK293-study.html. This allows to get reports on multiple mzTabs in the same folder without overwriting report results.
List of output file names (just names, no file is created) with list entries: yaml_file, heatmap_values_file, R_plots_file, filename_sorting, stats_file, log_file, report_file_prefix, report_file_PDF, report_file_HTML