BaderLab saber issues - Githubissues

BaderLab / saber

Saber is a deep-learning based tool for information extraction in the biomedical domain. Pull requests are welcome! Note: this is a work in progress. Many things are broken, and the codebase is not stable.

https://baderlab.github.io/saber/

MIT License

102 stars 17 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

Better control over type of training strategy

#150 JohnGiorgi closed 5 years ago
0
Metrics class should behave more like Keras's default History Callback

#149 JohnGiorgi opened 5 years ago
0
Joint, BERT-based model for NER and RC

#148 JohnGiorgi closed 5 years ago
0
Try out new grounding service

#147 JohnGiorgi opened 5 years ago
0
saber.load_dataset() should be able to pull from pubannotation.

#146 JohnGiorgi opened 5 years ago
0
Change default save directory

#145 JohnGiorgi opened 5 years ago
0
Switch to absolute imports

#144 JohnGiorgi closed 5 years ago
0
Put tensors returned under predict on CPU

#143 JohnGiorgi closed 5 years ago
0
Remove large files from commit history

#142 JohnGiorgi closed 5 years ago
0
Multi-task BERT for NER

#141 JohnGiorgi closed 5 years ago
1
Need nicely formatted string representation of a PyTorch model

#140 JohnGiorgi opened 5 years ago
0
Multi-task BERT

#139 JohnGiorgi closed 5 years ago
0
BioBERT

#138 JohnGiorgi closed 5 years ago
1
Optimizers not being reset during cross-validation

#137 JohnGiorgi closed 5 years ago
0
Switch to SciSpacy

#136 JohnGiorgi opened 5 years ago
0
Load BioBERT weights

#135 JohnGiorgi closed 5 years ago
9
Add pre-trained model to Google Drive

#134 JohnGiorgi closed 5 years ago
0
Fix Bert Preprocessing

#133 JohnGiorgi closed 5 years ago
0
Evaluation is slow

#132 JohnGiorgi opened 5 years ago
0
Better Handling of Rare Words

#131 JohnGiorgi opened 5 years ago
0
Better Batching

#130 JohnGiorgi closed 5 years ago
0
Simplify BiLSTM-CRF Architecture

#129 JohnGiorgi closed 5 years ago
0
Update NeuralCoref

#128 JohnGiorgi closed 5 years ago
4
NeuralCoref is now on pip

#127 JohnGiorgi closed 5 years ago
0
Multiple models

#126 JohnGiorgi closed 5 years ago
1
Easy way to evaluate a model

#125 JohnGiorgi opened 5 years ago
0
⬆️ Update spacy requirement from <=2.0.13,>=2.0.11 to >=2.0.11,<2.1.2

#124 dependabot-preview[bot] closed 5 years ago
6
⬆️ Update spacy requirement from <=2.0.13,>=2.0.11 to >=2.0.11,<2.1.1

#123 dependabot-preview[bot] closed 5 years ago
4
Dependabot can't evaluate your Python dependency files

#122 dependabot-preview[bot] closed 5 years ago
0
Save load annotate with bert

#121 JohnGiorgi closed 5 years ago
0
Config file needs to be re-written to better handle multiple models

#120 JohnGiorgi opened 5 years ago
0
Add grounding for major entity types using EXTRACT 2.0 API

#119 JohnGiorgi closed 5 years ago
2
Min functioning pytorch model

#118 JohnGiorgi closed 5 years ago
3
Add CHED base model

#117 JohnGiorgi closed 5 years ago
1
⬆️ Bump msgpack from 0.5.6 to 0.6.1

#116 dependabot-preview[bot] closed 5 years ago
5
Move pre-trained models to cloud

#115 JohnGiorgi closed 5 years ago
3
Move models from repository to cloud

#114 JohnGiorgi closed 5 years ago
8
Update long description in setup.py

#113 JohnGiorgi closed 5 years ago
0
⬆️ Bump msgpack from 0.5.6 to 0.6.0

#112 dependabot-preview[bot] closed 5 years ago
4
⬆️ Bump gensim from 3.6.0 to 3.7.0

#111 dependabot-preview[bot] closed 5 years ago
3
Prepare for PyPI

#110 cthoyt closed 5 years ago
4
⬆️ Bump waitress from 1.1.0 to 1.2.0

#109 dependabot-preview[bot] closed 5 years ago
3
Use new CRF loss function defined by keras-contrib

#108 JohnGiorgi closed 5 years ago
1
⬆️ Bump scikit-learn from 0.20.1 to 0.20.2

#107 dependabot-preview[bot] closed 5 years ago
2
Try Yogi Optimizer

#106 JohnGiorgi closed 5 years ago
0
Argument `fine_tune_word_embeddings` has no effect when transfer learning

#105 JohnGiorgi opened 5 years ago
0
Add Google Colaboratory link to readme

#104 JohnGiorgi closed 5 years ago
1
Use Google Colab for a tutorial

#103 JohnGiorgi closed 5 years ago
0
Fixes build issue on TravisCI caused by msgpack issue

#102 JohnGiorgi closed 5 years ago
1
Somewhat refs #90: fixed a syntax error; also used asyncio

#101 IgorRodchenkov closed 5 years ago
2

Previous Next