Model Card for Model ID

The model classifies DNA sequences from 31 classes. So, it is metagenomic.

Model Details

Model Description

This model takes sequences of varying size and classify them.

  • Developed by: Md Rasheduzzaman
  • Funded by [optional]: [More Information Needed]
  • Shared by [optional]: Md Rasheduzzaman
  • Model type: [More Information Needed]
  • Language(s) (NLP): [More Information Needed]
  • License: [More Information Needed]
  • Finetuned from model [optional]: InstaDeepAI/nucleotide-transformer-v2-50m-multi-species

Model Sources [optional]

InstaDeepAI/nucleotide-transformer-v2-50m-multi-species

  • Repository: [More Information Needed]
  • Paper [optional]: [More Information Needed]
  • Demo [optional]: [More Information Needed]

Uses

Direct Use

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Downstream Use [optional]

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Out-of-Scope Use

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Bias, Risks, and Limitations

It is trained only on 31 accession ids as a proof of concept.

Recommendations

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.

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Training Details

Training Data

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Training Procedure

Preprocessing [optional]

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Training Hyperparameters

  • Training regime: fp16 mixed precision

Speeds, Sizes, Times [optional]

  • epoch: 3.0
  • eval_accuracy: 0.9151175
  • eval_loss: 0.7366227507591248
  • eval_macro_f1: 0.6849655304585746
  • eval_runtime: 15257.5132
  • eval_samples_per_second: 26.217
  • eval_steps_per_second: 3.277
  • step: 399999
  • logging_steps: 50
  • max_steps: 666665
  • num_input_tokens_seen: 0
  • num_train_epochs: 5
  • save_steps: 500
  • early_stopping_patience: 3

Evaluation

Testing Data, Factors & Metrics

Testing Data

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Factors

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Metrics

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Results

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Summary

Model Examination [optional]

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Environmental Impact

Carbon emissions can be estimated using the Machine Learning Impact calculator presented in Lacoste et al. (2019).

  • Hardware Type: GPU
  • Hours used: [More Information Needed]
  • Cloud Provider: FLI Insel Riems
  • Compute Region: [More Information Needed]
  • Carbon Emitted: [More Information Needed]

Technical Specifications [optional]

Model Architecture and Objective

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Compute Infrastructure

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Hardware

Tesla V100S-PCIE-32GB, 32768 MiB, 530.30.02, 7.0

Software

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Citation [optional]

BibTeX:

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APA:

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Glossary [optional]

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Model Card Authors [optional]

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Model Card Contact

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Framework versions

  • PEFT 0.17.1
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