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1. GCN-HGT GCN-HGT Public

   Prediction of horizontal gene transfer (HGT) using graph convolutional network

   Python 12 4

2. PRO-seq PRO-seq Public

   Scripts and R code used to process sequencing data and generate figures for E. coli & microbiome PRO-seq

   Shell 2 1

3. Global-and-taxonomic-ARG-prevelence Global-and-taxonomic-ARG-prevelence Public

   Code for the manuscript "Clinically relevant antibiotic resistance genes are linked to a restricted set of taxa within gut microbiome worldwide"

   Jupyter Notebook 1

4. Human-microbiome-PPI Human-microbiome-PPI Public

   Host-microbiome protein-protein interactions capture disease-relevant pathways

   Jupyter Notebook

5. ppi_autoimmune ppi_autoimmune Public

   Python

6. shcast-metagenome-analysis shcast-metagenome-analysis Public

   Analysis scripts for ShCAST transposition in a microbial community: MAG assembly, transposon-genome junction detection, on/off-target and edited-fraction quantification, from short-read metagenomic…

   Python