This is a repository for algorithms for targeted detection, extraction, and characterisation of peptide features in timsTOF data.
There are a couple of approaches to feature detection here.
A DDA pipeline that detects peptide features using the instrument isolation windows as a starting point. Code is here.
Training a YOLO object detection ANN to detect features in ms1 frames. Intended to be used on the instrument at run-time to select precursors to fragment. Code is here.
Using the characteristic structure of peptides to detect and segment features for identification. Code is here.
- Jupyter notebooks for prototypying ideas.
- Experiments, some of which helped develop ideas, while others didn't go very far.