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sponge_meta_bgc's Introduction

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

sponge_meta_bgc's People

Contributors

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Forkers

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