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.