| --- |
| license: cc-by-nc-4.0 |
| task_categories: |
| - tabular-classification |
| - token-classification |
| language: |
| - en |
| tags: |
| - synthetic-data |
| - genomics |
| - bioinformatics |
| - dna |
| - sequencing |
| size_categories: |
| - 100M<n<1B |
| --- |
| |
| # FreeSyntheticGenomicReads200M |
|
|
| A free dataset of 200 million fully synthetic short-read DNA sequences, built for developers, researchers, and students who need realistic sequencing-style data at scale — for testing bioinformatics pipelines, sequence-alignment tools, read-processing systems, or teaching computational biology. No real genomes, organisms, or individuals are represented in this data; every sequence is randomly generated. |
|
|
| ## Schema |
|
|
| | Column | Type | Description | |
| |---|---|---| |
| | read_id | string | Unique read identifier | |
| | sequence | string | 150 bp read sequence (A/C/G/T) | |
| | quality_scores | string | Per-base Phred+33 quality string (150 chars) | |
| | chromosome | string | Mapped chromosome (chr1-chr22, chrX, chrY, chrM), or * if unmapped | |
| | position | int | 1-based reference position, or 0 if unmapped | |
| | strand | string | + or - for mapped reads, * if unmapped | |
| | mapping_quality | int | MAPQ score (0-60) | |
| | gc_content | float | GC fraction of the read (0-1) | |
| | is_mapped | bool | Whether the read is mapped | |
| | read_length | int | Read length in bases (150) | |
|
|
| ## Format |
|
|
| Single Parquet file, Snappy compression, ~44 GB, 200,000,000 rows. |
|
|
| ## Quick Start |
|
|
| Note: this dataset is ~44 GB and 200M rows. Do not load it all at once — stream it in batches or query it with a columnar engine. |
|
|
| **duckdb (recommended)** |
| ```python |
| import duckdb |
| duckdb.sql("SELECT * FROM 'genomic_200M.parquet' LIMIT 10").show() |
| ``` |
|
|
| **pyarrow batches** |
| ```python |
| import pyarrow.parquet as pq |
| pf = pq.ParquetFile("genomic_200M.parquet") |
| for batch in pf.iter_batches(batch_size=100000): |
| ... # process each batch |
| ``` |
|
|
| **datasets (streaming)** |
| ```python |
| from datasets import load_dataset |
| ds = load_dataset("ziadatalabs/FreeSyntheticGenomicReads200M", streaming=True) |
| ``` |
|
|
| ## Notes |
|
|
| Sequences are 150 bp random A/C/G/T with per-base Phred+33 quality strings skewed toward high quality, mirroring the shape of real short-read output. Reads are mapped (~94%) across chromosomes weighted by real human chromosome sizes, with mapping quality, position, strand, and GC content populated accordingly; unmapped reads carry the standard * / 0 placeholders. All entirely synthetic — no real biological sequence is represented. |
|
|
| ## License & Usage |
|
|
| Released under CC BY-NC 4.0 — personal, research, and educational use permitted, attribution required, no commercial use. |
|
|
| --- |
|
|
| Created by Zia Data Labs. Questions or feedback: zia.data.team@protonmail.com |
|
|
