Software Open Access
fraser-lab/qptm: qPTxM v1.1.0
Iris Young;
James Fraser
This version adds the new option to take verbose results from a standard run of qPTxM and use a random forest classifier trained on synthetic data to predict a (hopefully overlapping) set of modifications. The random forest we trained is distributed as a compressed binary -- decompress to a pickle to use it. We also include the scripts necessary to generate synthetic data, train and test this random forest so that developers can follow the same steps to train their own.
Other changes of note: verbose output all_tested_ptms.out lists all modifications tested on all recognized nucleotides along with the relevant measurements (densities, cc, score, etc.) at each site.
| Name | Size | |
|---|---|---|
|
fraser-lab/qptm-v1.1.0.zip
md5:287f81ac73c943f3a58cc26494738f36 |
42.8 kB | Download |
| All versions | This version | |
|---|---|---|
| Views | 148 | 93 |
| Downloads | 7 | 3 |
| Data volume | 227.9 kB | 128.3 kB |
| Unique views | 116 | 78 |
| Unique downloads | 6 | 3 |
Indexed in
- Publication date:
- November 28, 2019
- DOI:
-
- Related identifiers:
- Supplement to
- License (for files):
- Other (Open)