Update README.md
Browse files
README.md
CHANGED
|
@@ -1,3 +1,42 @@
|
|
| 1 |
---
|
| 2 |
license: cc-by-nc-nd-4.0
|
|
|
|
| 3 |
---
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
---
|
| 2 |
license: cc-by-nc-nd-4.0
|
| 3 |
+
pipeline_tag: tabular-classification
|
| 4 |
---
|
| 5 |
+
# Flowformer
|
| 6 |
+
|
| 7 |
+
Automatic detection of blast cells in ALL data using transformers.
|
| 8 |
+
|
| 9 |
+
Official implementation of our work: *"Automated Identification of Cell Populations in Flow Cytometry Data with Transformers"*
|
| 10 |
+
by Matthias Wödlinger, Michael Reiter, Lisa Weijler, Margarita Maurer-Granofszky, Angela Schumich, Elisa O Sajaroff, Stefanie Groeneveld-Krentz, Jorge G Rossi, Leonid Karawajew, Richard Ratei and Michael Dworzak
|
| 11 |
+
|
| 12 |
+
## Usage
|
| 13 |
+
|
| 14 |
+
Load the pretrained model from huggingface
|
| 15 |
+
|
| 16 |
+
```
|
| 17 |
+
from transformers import AutoModel
|
| 18 |
+
flowformer = AutoModel.from_pretrained("matth/flowformer", trust_remote_code=True)
|
| 19 |
+
```
|
| 20 |
+
|
| 21 |
+
`trust_remote_code=True` is necessary because the model code uses a custom architecture.
|
| 22 |
+
|
| 23 |
+
## Citation
|
| 24 |
+
|
| 25 |
+
If you use this project please consider citing our work
|
| 26 |
+
|
| 27 |
+
```
|
| 28 |
+
@article{wodlinger2022automated,
|
| 29 |
+
title={Automated identification of cell populations in flow cytometry data with transformers},
|
| 30 |
+
author={Wödlinger, Matthias and Reiter, Michael and Weijler, Lisa and Maurer-Granofszky, Margarita and Schumich, Angela and Sajaroff, Elisa O and Groeneveld-Krentz, Stefanie and Rossi, Jorge G and Karawajew, Leonid and Ratei, Richard and others},
|
| 31 |
+
journal={Computers in Biology and Medicine},
|
| 32 |
+
volume={144},
|
| 33 |
+
pages={105314},
|
| 34 |
+
year={2022},
|
| 35 |
+
publisher={Elsevier}
|
| 36 |
+
}
|
| 37 |
+
```
|
| 38 |
+
|
| 39 |
+
|
| 40 |
+
---
|
| 41 |
+
license: cc-by-nc-nd-4.0
|
| 42 |
+
---
|