esbglab
/

Claspp_forward

@@ -98,6 +98,44 @@ Installing torch can be the most complex part
 ### Downloading this repository
@@ -164,78 +202,6 @@ We provided code to test Phosformer-ST (see section below)
 :tada: you are know ready to run the code :tada:
-### Model Description
-<!-- Provide a longer summary of what this model is. -->
-- **Developed by:** [Nathan Gravel]
-- **Funded by [optional]:** [NIH]
-- **Shared by [optional]:** [More Information Neede]
-- **Model type:** [Text classication]
-- **Language(s) (NLP):** [Protein Sequence]
-- **License:** [MIT]
-- **Finetuned from model [optional]:** [ESM-2 150M]
-### Model Sources [optional]
-| Repo  | Link | Discription|
-| ------------- | ------------- |------------------------------------------|
-| GitHub  | [github version Data_cur](https://github.com/gravelCompBio/Claspp_data_cur/tree/main)  | This verstion contains code but needs the to run the code to generate all the helper-files (will take some time run this code)|
-| Zenodo  | [zenodo version Data_cur](https://github.com/gravelCompBio/Claspp_data_cur/tree/main) | This version contains code and helper files already genrated. mostly for proof of concept and seeing the all the data intermeidate states |
-| GitHub  | [github version Forward](https://github.com/gravelCompBio/Claspp_data_cur/tree/main)  | This verstion contains code but NOT any weights (file to big)|
-| Huggingface | [huggingface version Forward](https://huggingface.co/gravelcompbio/Claspp)  | This verstion contains code and training weights |
-| Zenodo | [zenodo version training_data](https://github.com/gravelCompBio/Claspp_data_cur/tree/main)  | zenodo version of training/testing/validation data|
-| Hugingface | [huggingface version training_data](https://github.com/gravelCompBio/Claspp_data_cur/tree/main)  | huggingface version of training/testing/validation data|
-| Hugingface  | [gradio lab webtool](https://github.com/gravelCompBio/Claspp_data_cur/tree/main)  | webtool hosted on gradio lab (huggingface)|
-| webtool | [website version of webtool](https://github.com/gravelCompBio/Claspp_data_cur/tree/main)  | wettool hosted on a server|
-- **Repository:** [More Information Needed]
-- **Paper [optional]:** [More Information Needed]
-- **Demo [optional]:** [More Information Needed]
-## Uses
-<!-- Address questions around how the model is intended to be used, including the foreseeable users of the model and those affected by the model. -->
-### Direct Use
-<!-- This section is for the model use without fine-tuning or plugging into a larger ecosystem/app. -->
-[More Information Needed]
-### Downstream Use [optional]
-<!-- This section is for the model use when fine-tuned for a task, or when plugged into a larger ecosystem/app -->
-[More Information Needed]
-### Out-of-Scope Use
-<!-- This section addresses misuse, malicious use, and uses that the model will not work well for. -->
-[More Information Needed]
-## Bias, Risks, and Limitations
-<!-- This section is meant to convey both technical and sociotechnical limitations. -->
-[More Information Needed]
-### Recommendations
-<!-- This section is meant to convey recommendations with respect to the bias, risk, and technical limitations. -->
-Users (both direct and downstream) should be made aware of the risks, biases and limitations of the model. More information needed for further recommendations.
-## How to Get Started with the Model
 Use the code below to get started with the model.
 [More Information Needed]
@@ -261,79 +227,14 @@ Use the code below to get started with the model.
 - **Training regime:** [More Information Needed] <!--fp32, fp16 mixed precision, bf16 mixed precision, bf16 non-mixed precision, fp16 non-mixed precision, fp8 mixed precision -->
-#### Speeds, Sizes, Times [optional]
-<!-- This section provides information about throughput, start/end time, checkpoint size if relevant, etc. -->
-[More Information Needed]
-## Evaluation
-<!-- This section describes the evaluation protocols and provides the results. -->
-### Testing Data, Factors & Metrics
-#### Testing Data
-<!-- This should link to a Dataset Card if possible. -->
-[More Information Needed]
-#### Factors
-<!-- These are the things the evaluation is disaggregating by, e.g., subpopulations or domains. -->
-[More Information Needed]
-#### Metrics
-<!-- These are the evaluation metrics being used, ideally with a description of why. -->
-[More Information Needed]
-### Results
-[More Information Needed]
-#### Summary
-## Model Examination [optional]
-<!-- Relevant interpretability work for the model goes here -->
-[More Information Needed]
-## Environmental Impact
-<!-- Total emissions (in grams of CO2eq) and additional considerations, such as electricity usage, go here. Edit the suggested text below accordingly -->
-Carbon emissions can be estimated using the [Machine Learning Impact calculator](https://mlco2.github.io/impact#compute) presented in [Lacoste et al. (2019)](https://arxiv.org/abs/1910.09700).
-- **Hardware Type:** [More Information Needed]
-- **Hours used:** [More Information Needed]
-- **Cloud Provider:** [More Information Needed]
-- **Compute Region:** [More Information Needed]
-- **Carbon Emitted:** [More Information Needed]
-## Technical Specifications [optional]
-### Model Architecture and Objective
 [More Information Needed]
-### Compute Infrastructure
-[More Information Needed]
-#### Hardware
-[More Information Needed]
-#### Software
-[More Information Needed]
 ## Citation [optional]
@@ -347,20 +248,17 @@ Carbon emissions can be estimated using the [Machine Learning Impact calculator]
 [More Information Needed]
-## Glossary [optional]
-<!-- If relevant, include terms and calculations in this section that can help readers understand the model or model card. -->
-[More Information Needed]
-## More Information [optional]
-[More Information Needed]
-## Model Card Authors [optional]
-[More Information Needed]
-## Model Card Contact
 [More Information Needed]

+### Model Sources [optional]
+| Repo  | Link | Discription|
+| ------------- | ------------- |------------------------------------------|
+| GitHub  | [github version Data_cur](https://github.com/gravelCompBio/Claspp_data_cur/tree/main)  | This verstion contains code but needs the to run the code to generate all the helper-files (will take some time run this code)|
+| Zenodo  | [zenodo version Data_cur](https://github.com/gravelCompBio/Claspp_data_cur/tree/main) | This version contains code and helper files already genrated. mostly for proof of concept and seeing the all the data intermeidate states |
+| GitHub  | [github version Forward](https://github.com/gravelCompBio/Claspp_data_cur/tree/main)  | This verstion contains code but NOT any weights (file to big)|
+| Huggingface | [huggingface version Forward](https://huggingface.co/gravelcompbio/Claspp)  | This verstion contains code and training weights |
+| Zenodo | [zenodo version training_data](https://github.com/gravelCompBio/Claspp_data_cur/tree/main)  | zenodo version of training/testing/validation data|
+| Hugingface | [huggingface version training_data](https://github.com/gravelCompBio/Claspp_data_cur/tree/main)  | huggingface version of training/testing/validation data|
+| Hugingface  | [gradio lab webtool](https://github.com/gravelCompBio/Claspp_data_cur/tree/main)  | webtool hosted on gradio lab (huggingface)|
+| webtool | [website version of webtool](https://github.com/gravelCompBio/Claspp_data_cur/tree/main)  | wettool hosted on a server|
+- **Repository:** [More Information Needed]
+- **Paper [optional]:** [More Information Needed]
+- **Demo [optional]:** [More Information Needed]
+## Uses
+<!-- Address questions around how the model is intended to be used, including the foreseeable users of the model and those affected by the model. -->
+### Direct Use
+<!-- This section is for the model use without fine-tuning or plugging into a larger ecosystem/app. -->
+[More Information Needed]
+### Recommendations
+<!-- This section is meant to convey recommendations with respect to the bias, risk, and technical limitations. -->
+Users (both direct and downstream) should be made aware of the risks, biases and limitations of the model. More information needed for further recommendations.
+## How to Get Started with the Model
 ### Downloading this repository
 :tada: you are know ready to run the code :tada:
 Use the code below to get started with the model.
 [More Information Needed]
 - **Training regime:** [More Information Needed] <!--fp32, fp16 mixed precision, bf16 mixed precision, bf16 non-mixed precision, fp16 non-mixed precision, fp8 mixed precision -->
+## Hardware
 [More Information Needed]
 ## Citation [optional]
 [More Information Needed]
+- **Developed by:** [Nathan Gravel]
+- **Funded by [optional]:** [NIH]
+- **Shared by [optional]:** [More Information Neede]
+- **Model type:** [Text classication]
+- **Language(s) (NLP):** [Protein Sequence]
+- **License:** [MIT]
+- **Finetuned from model [optional]:** [ESM-2 150M]
 [More Information Needed]