Zi-LN

This repository is the code base used for generating the experimental results of the article "A zero inflated log-normal model for inference of sparse microbial association networks". The inference method exposed in the article is implemented in the scripts inference.R and script_command_line.R along with other methods used for benchmark.

R package dependencies

• SpiecEasi (1.0.7)
• stats
• rMAGMA (0.93)
• QUIC (1.1)
• huge (1.3.4)
• JuliaCall (0.17.1)
• optparse (1.6.6)
• ggplot2 (3.3.2)
• ggh4x

Figure 2

./draw_figure_2.sh

aupr_fig_2.pdf

Figure 3

./draw_figure_3.sh

aupr_fig_3.pdf

Figure 6

./draw_figure_6.sh

aupr_fig_6.pdf