LucaGroup/LucaVirus-OpenVirus-Gene-RawData

LucaVirus Raw Nucleic Acid Dataset

This dataset contains the raw, unsliced nucleic acid sequences and their associated metadata for the LucaVirus project.

For protein data, please refer to the 'LucaGroup-LucaVirus-OpenVirus-Prot.tar.gz' archive, as those sequences remain unsliced and do not require the raw data.

Dataset Structure

The dataset is organized into the following components:

1. NCBI Derived Data

These files contain nucleic acid sequences and annotations retrieved directly from the NCBI database.

• lucavirus_raw_nucl_ncbi_feature: Contains the feature annotations (e.g., coding regions, regulatory elements) for the NCBI sequences.

• lucavirus_raw_nucl_ncbi_meta: Contains the comprehensive metadata associated with the NCBI records (e.g., accession numbers, source organisms, release dates).

• lucavirus_raw_nucl_ncbi_seq: Contains the raw nucleic acid sequence data corresponding to the NCBI entries.

2. Supplemental Data

• lucavirus_raw_nucl_extra_seq: Contains additional nucleic acid sequences collected autonomously to supplement the primary NCBI dataset.

3. Utility Tables

• lucavirus_util_ncbi_taxid2lineage: A mapping table linking NCBI Taxonomy IDs to their respective full biological lineages. This is intended to assist in taxonomic classification and analysis of the sequences.

Usage Notes

Raw Data: This dataset provides raw, unsliced nucleic acid sequences. If your downstream models require fixed-length windows or k-mer representations, you will need to perform the slicing/preprocessing steps accordingly.

Protein Data: Protein sequences are provided separately in LucaGroup-LucaVirus-OpenVirus-Prot.tar.gz. These are ready-to-use and do not require slicing.

Data Integrity: Ensure that the taxonomy mapping file is used to cross-reference the organism information provided in the NCBI metadata files if taxonomic grouping is required.