chao's repositories
bget
Portable command-line tool to query bioinformatics APIs, data, databases and files.
data_to_viz
Leading to the dataviz you need
deeplearning-biology
A list of deep learning implementations in biology
gentle-ggplot2
📊 A Gentle Guide to the Grammar of Graphics with ggplot2
ggpubr
'ggplot2' Based Publication Ready Plots
Global-Soil-Virome
Supporting code for manuscript: "Ecological/environmental drivers of global soil virome diversity"
Groningen-Microbiome
Microbiome Projects from the Department of Genetics and Department of Gastroenterology and Hepatology , University Medical Centre Groningen
lathe
A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
LLNEXT_pilot
We studied the dynamics of the maternal gut virome during and after pregnancy, the infant gut virome during early life, with a particular focus on the transmission of viral strains from mothers to their infants.
MAGpy
Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)
MGV
Supporting code for uncultivated gut virus manuscript
PIGC
The construction of reference gene catalog and metagenome-assembled genomes of pig gut microbiome.
RiA2
Source code for R in Action, Second Edition
VFCs
Code for de novo discovery of viral families in virome data
Zhang2018SCLS
Rice (Oryza Sative) root microbiome time-course analysis. (Zhang2018SCLS)