question about this

[Hane710477]

hi, i have problem with this, is there any files not included or it's just private. Ans if possible, may i have this to be able to run your R file to check the result? https://github.com/caravagnalab/rcongas/blob/9aae6022d71d765cae6ba700db45a8f7afcab0ec/nobuild/OV_analysis.Rmd#L29

[caravagn]

Hi @Hane710477 I do not think that the nobuild folder is for release, so it might be unsupported right now. Let's see what @Militeee and @lucreziaPatruno say regarding this.

[Militeee]

Hi @Hane710477, so as Giulio was saying the files in the nobuild folder are completely deprecated, I will remove them with the next commit. If by any chance you need a working example of that notebook you can find it here (xeno_example.Rmd).

Be careful that it will work just with the first paper version (and branch of rcongas).

If you plan on using it in real life and not just to reproduce this specific example I suggest you stick with the new one which has a whole lot of new and improved functionalities.

Cheers, S.

examples_first_paper.zip

[Hane710477]

thanks for help, and i wonder in which directory the example should be place, cuz when i tried to run the example, some warnings occured: Warning: S3 methods ‘[.congas’, ‘[.rcongas’, ‘plot.rcongas’, ‘print.rcongas’, ‘summary.rcongas’ were declared in NAMESPACE but not found Warning: Objects listed as exports, but not present in namespace also, there's another warning: Warning: cannot open compressed file 'breast_xeno_10x_small_segments_total_CN_norm.rda', probable reason 'No such file or directory' is this data file missing?

[caravagn]

Did you install the latest version of the tool?

[Hane710477]

I tried to install first-paper-version to run example which Mr. Salvatore provided, and I'm not pretty sure if i misunderstand anything, or I just made errors at some steps, like file missing or problem of environment setting, etc.

[caravagn]

@Militeee