Brown-Algae.dataset

The dataset folder contains essential files required for the execution and testing of the iCulture pipeline. This folder includes: 1. Reference Databases: • Pfam-A.hmm and associated index files (*.h3f, *.h3i, *.h3m, *.h3p): • These files constitute the Pfam database used for HMMER annotation of protein sequences. • The database enables the identification of protein domains and families within query sequences. 2. Input FASTA Files: • brown-algae_dataset.fa: • This FASTA file is generated from the brown algae dataset downloaded from The Phaeoexplorer Project. • It contains protein sequences from brown algae, formatted for compatibility with the pipeline. • This file is used as an input for clustering and annotation during the pipeline execution. 3. Sample Input Files: • These files are provided to facilitate testing and ensure reproducibility of the pipeline results. Purpose: This directory serves as a centralized location for storing datasets and databases necessary for running the iCulture pipeline, particularly in reproducibility-focused workflows. Note: If you wish to use the pipeline with custom datasets, replace the example files in this folder with your own, following the required format.