Guides¶
Below you will find a collection of guides how to use and configure alphaDIA for specific searches.
Library free DIA search using the GUI
Perform a DIA search of label free bulk data usinmg a fully predicted spectral library from a FASTA digest.
GUI
DIA Transfer Learning for Dimethyl labeled samples
Use the AlphaDIA GUI to train a custom peptdeep model for dimethyl labeled DIA data. The custom model is then used to search non-multiplexed dimethyl labeled data with match between runs.
GUI Transfer Learning
Evaluate Transfer Learning Metrics
Evaluate the transfer learning by visualizing the metrics for the RT, Charge, Mobility and MS2 prediction tasks.
Jupyter Notebook Transfer Learning