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athaliana-genome-corpus

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biology
dna
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license: apache-2.0
tags:
  - biology
  - dna

Dataset Card for Arabidopsis Genome Corpus

Dataset Description

This dataset consists of model plant genomes available on NCBI, specifically processed and cleaned for research and pre-training purposes. The default configuration, "6kbp," provides DNA chunks of 6.2kbp with a 100bp overlap on each side. The sequences are cleaned and processed to contain only the letters A, T, C, G, and N, ensuring high-quality genomic data suitable for various bioinformatics and machine learning applications.

Dataset Summary

  • Homepage: NCBI
  • License: NCBI Policies
  • Version: 1.1.0
  • Size: Variable depending on the configuration
  • Default Configuration: 6kbp chunks

Usage Example 

from datasets import load_dataset

# default chunk-size is 6000
chunk_length = 1024
repo = "suke-sho/arabidopsis_genome_corpus"
datasets = load_dataset(repo, trust_remote_code=True, chunk_length=chunk_length)

Acknowledgments

This dataset is an adaptation of the "InstaDeepAI/plant-multi-species-genomes" dataset & script. Special thanks to InstaDeepAI for their original work.