CatarinaCarolina / sponge_meta_BGC

This is the Github repository for the scrips and input files used to perform the analysis described in this publication: "Comparative metagenomic analysis of biosynthetic diversity across sponge microbiomes highlights metabolic novelty, conservation and diversification" https://doi.org/10.1128/msystems.00357-22

Requirements:

Please keep in mind that these scripts have only been tested in python3.

Software:

• antiSMASH v5.0
• BiG-SCAPE
• BiG-MAP
• dREP
• GTDB-Tk
• PhyloFlash
• Pyhton 3+

Pyhton Packages:

• Argparse
• Pandas
• Matplotlib
• Seaborn
• Numpy
• Collections
• Copy
• Os
• Itertools
• Sklearn
• Pickle
• Upsetplot
• Scipy
• Skbio

Guidelines:

• Figure 1,2: /bigscape_output
• Figure 3: /phyloflash_NTU & /stats_ordination
• Figure 4: data_combos_itol