I wrote an instruction for running MS-DIAL on Linux and Mac: https://github.com/Jiung-Wen/msdial Unfortunately, they both have command line interface only.
Thanks for making such a good software! I am using Linux console app (v4.80) and have several questions regarding the parameter file.
How to specify the target omics (metabolomics/lipidomics) in the parameter file? In the “start up a project” tab (see pic), I can select either metabolomics or lipidomics.
How to specify "reference file (see pic)" in the parameter file? According to the source code in ConfigParser.cs, I assume it is “Alignment reference file ID”. However, since it only take integer instead of string as variable, how do I get the ID corresponding to each sample?
How to specify the number of threads in the parameter file? Or does it automatically use all the available threads?
I'd really appreciate your help and look forward to hearing from you.