Cleaning up the README.md file

[magnuspalmblad]

Since @524D added a number of nice screenshots, closing this issue, the README file is a bit messy. I think we should remove Figure 2, since this is no longer an experimental feature, which is also captured by one of the screenshots.

Some things to consider:

1. Should add a new section with some example data, including the small primate files, but maybe also some of the food samples we used for spectra2species?
2. Should we cite where we got the bacterial data from that is currently used in the screenshots, and link to where it can be downloaded? I think this would be fair.
3. Would it make sense to use the same datasets for all screenshots? Or the most appropriate for each, e.g. the fish, mammals and birds from the food authentication study for spectra2species, and @neely's Fusion Lumos with the higher charge states for the two data set comparison (heatmap)?
4. Should we (medium-term) move the documentation in the README file to Read the Docs and only have a minimum README file?

[MadhushriMSV]

@magnuspalmblad and @524D I think adding example datasets from the food authentication/spectra2species work would be very valuable, especially for demonstrating potential applications in food and feed safety. A recently published dataset could be used as an example for the spectra2species workflow: MassIVE ID: MSV000094602. In this dataset, we used commercial seafood samples containing fish mixtures.

I also agree that it would make sense to use the same datasets throughout the screenshots, for example using the food authentication datasets for the spectra2species workflow. This would likely make the workflow easier for users to follow and understand.

[magnuspalmblad]

Maybe for the N-vs-N, the more typical use case would be individual species?

[MadhushriMSV]

Yes, I agree, for the N-vs-N comparison, individual species would probably represent the more typical use case. We also have samples with individual fish species in the dataset MassIVE ID: MSV000094602.