This release of ViMMS contains many major changes, enhancements and features to accompany the paper **'Rapid Development of Improved Data-dependent Acquisition Strategies'** ([link to paper](https://pubs.acs.org/doi/10.1021/acs.analchem.0c03895)).
Here are some highlights of this release:
- Added supports to allow controllers to run on both the simulated environment as well as on an actual mass spectrometry. At the moment, we only support Thermo Fusion instrument on [IAPI](https://github.com/thermofisherlsms/iapi).
- Many new controllers, including the SmartROI and WeightedDEW controllers featured in the paper. These controllers outperform standard Top-N controllers in coverage, fragmenting more precursor ions that were missed before. For example usage, see [these notebooks](https://github.com/sdrogers/vimms/tree/master/demo/02.%20Methods).
- Sequence managers and multi-sample methods. For example, see [these notebooks](https://github.com/sdrogers/vimms/tree/master/demo/03.%20MultiSampleMethods).
- Many unit tests have been written to ensure robust codes. They can also be used to demonstrate how to run things in the simulated environment. [See here](https://github.com/sdrogers/vimms/tree/master/tests).
Note: You can download ViMMS 1.0 used in our original paper [from here](https://zenodo.org/record/3380585). It contains codes up to the first paper, but they are quite out-of-date now.