Datasets:
File size: 1,619 Bytes
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license: cc-by-4.0
task_categories:
- tabular-classification
- tabular-regression
language:
- en
tags:
- genomics
- snp
- genotype
- phenotype
- agriculture
- rice
- set-learning
pretty_name: OryzaSNPs
size_categories:
- 1K<n<10K
configs:
- config_name: default
data_files:
- split: train
path: data/train/data-*.arrow
- split: test
path: data/test/data-*.arrow
- config_name: genomic
data_files:
- split: train
path: genomic/data-*.arrow
---
# OryzaSNPs
## Description
OryzaSNPs is a dataset of SNP (Single Nucleotide Polymorphism) genotypes and associated phenotypic traits for *Oryza* species. The dataset is designed for machine learning, statistical genetics, and genotype–phenotype association studies.
## Dataset Structure
### Split: `train`/`test`
Each row corresponds to one individual (specimen).
- **genotype** (`int8`, shape: 177650)
Encoded SNP genotypes across the genome
- **phenotypes** (`float32`, shape: 19)
Quantitative or encoded categorical traits
### Auxiliary: `snps`
Metadata describing each SNP (shared across all samples).
- **chrom**: Chromosome identifier
- **pos**: Normalized genomic position (scaled to [0, 1] within chromosome)
- **allele**: Encoded allele information
## Genotype Encoding
Each SNP genotype is encoded as an integer in the set:
| Value | Meaning |
|------|--------|
| **-1** | Missing genotype (no reliable call) |
| **0** | Homozygous reference allele |
| **1** | Heterozygous (one reference, one alternate allele) |
| **2** | Homozygous alternate allele |
|