Liu zifeng's repositories
bioinformatics_pipeline
Bioinformatics Pipeline
bioinformatics_tutorials
tutorials
chaoxing-sign-cli
超星学习通签到，Nodejs脚本。支持普通签到、手势签到、位置签到、二维码签到。
coding-interview-university
A complete computer science study plan to become a software engineer.
EasyMicrobiomeR
Using R language in microbiome analysis
hecatomb
hecatomb is a virome analysis pipeline for analysis of Illumina sequence data
jcvi
Python library to facilitate genome assembly, annotation, and comparative genomics
JMAG_JVD
This is a repository of the codes used in the Tomofuji et al (prokaryotic and viral genomes recovered from 787 Japanese gut metagenomes revealed microbial features associated with diets, populations, and diseases).
kmcp
Accurate metagenomic profiling && Fast large-scale sequence/genome searching
kover
Learn interpretable computational phenotyping models from k-merized genomic data
metaGEM
A Snakemake pipeline for the generation of MAGs, reconstruction of GEMs, and simulation of cross-feeding interactions within microbial communities from lab cultures, human gut, ocean, plant-associated, and bulk soil microbiomes
pathongs
Pathogen NGS Documentary
PhenotypeSeeker
Identify phenotype-specific k-mers and predict phenotype using sequenced bacterial strains
PRGC
Comprehensive catalogs for microbial genes and metagenome-assembled genomes of the swine lower respiratory tract microbiome
pytorch-beginner
pytorch tutorial for beginners
RNA_virus_detector
VirBot: a protein-based RNA virus detector for metagenomic data
scipy
Scipy library main repository
SOVAP
The Soil Virome Analysis Pipeline (SOVAP) is designed to process, analyze, and annotate viromics and metagenomics data using cutting-edge tools, providing valuable insights into the virome and microbial communities found in complex environments, such as soil ecosystems.
SOVAP_Soil_dsRNA
Supporting code for manuscript: Soil dsRNA Viromics
Sus_Liver_eSTRs
Mapping short tandem repeats for liver gene expression traits help to prioritize potential causal variants for complex traits in pigs
V-pipe
V-pipe is a pipeline designed for analysing NGS data of short viral genomes
vip-1
Variable Importance Plots (VIPs)
viralrecall
Detection of NCLDV signatures in 'omic data
ViWrap
A wrapper to identify, bin, classify, and predict host-viral relationship for viruses
WIsH
Predict prokaryotic host for phage metagenomic sequences
woltka
Web of Life Toolkit App