| | ---
|
| | tags:
|
| | - biology
|
| | - DNA
|
| | - genomics
|
| | ---
|
| | |
| | # Pretraining dataset |
| |
|
| | For pretraining and validation, we curated a dataset comprising all 19,551 representative genomes sourced from the National Center for Biotechnology Information (NCBI) |
| | database by February 23, 2024, including 18,268 bacterial, 647 archaeal, 577 fungal, 40 viral, and 1 human reference genome. |
| | Then, to create samples, we created chunks of 3200 long nucleotide sequences with 100 bases overlapping. |
| | The resulting train set has 27,831,882 samples, the validation set has 3,478,985, and the test set has 3,478,986 samples. |
| |
|
| |
|
| | ## Dataset Structure |
| |
|
| | Each dataset sample contains the following information: |
| |
|
| | - **`assembly_accession`**: Genome assembly identifier |
| | - **`seq_id`**: Accession identifier |
| | - **`assembly_id`**: Line number in the file |
| | - **`start`**: Start position of the sequence read within the accession ID |
| | - **`sequence`**: DNA sequence data |
| | - **`sequence_length`**: Length of the DNA sequence sample |
| | - **`split`**: Dataset split category |
