Pinned Repositories
biobakery
bioBakery tools for meta'omic profiling
bwa-mem2
bwa-mem2
CRC-cohort-Hainan-China
R code for shotgun metagenomic sequences of CRC patient and healthy cohorts from Hainan, China
CRC-SNP
Establishing a novel colorectal cancer prediction model based on unique microbial single nucleotide variants markers
gt-pro
metapop
A pipeline for the macro- and micro-diversity analyses and visualization of metagenomic-derived populations
MetaTiME
MetaTiME: Meta-components in Tumor immune MicroEnvironment
ML_human_gut
QIIME2ChineseManual
QIIME 2中文文档(QIIME 2 Chinese Manual)
run_dbcan
Run_dbcan V2, using genomes/metagenomes/proteomes of any orgaisms(prokaryotes, fungi, plants, animals, viruses) to search for CAZymes.
HNUmcc's Repositories
HNUmcc/evident
HNUmcc/SAIGE
Efficiently controlling for case-control imbalance and sample relatedness in large-scale genetic association studies
HNUmcc/host_gene_microbiome_interactions
Analysis framework for integrating gut microbiome and host gene expression data
HNUmcc/StrainGE
strain-level analysis tools
HNUmcc/metapop
A pipeline for the macro- and micro-diversity analyses and visualization of metagenomic-derived populations
HNUmcc/ggplot2
An implementation of the Grammar of Graphics in R
HNUmcc/LagBasedResponderIdentifier
HNUmcc/halla
Hierarchical All-against-All association
HNUmcc/defense-finder
Systematic search of all known anti-phage systems.
HNUmcc/SNPsnp
A machine learning model to provide guidance for researchers to determine the optimal sequencing depth
HNUmcc/GAN-GMHI
HNUmcc/defense-finder-models
MacSyFinder models allowing for a systematic search of anti-phage systems
HNUmcc/crossRanger
RF
HNUmcc/HiOrCo
Higher-Order Co-occurrence
HNUmcc/wgsim
simulate data
HNUmcc/decontam
DNA concentration and negative control
HNUmcc/inStrain
Bioinformatics program inStrain
HNUmcc/Probiotics-SNV-meta
In this study, we annotated the SNV of the gut microbiota after probiotics treatment.
HNUmcc/SOAPdenovo2
Next generation sequencing reads de novo assembler.
HNUmcc/Pipeline_trans_LCZ
The pipeline uncovered the dynamic replication and transcription of Lactobacillus casei Zhang in the human gut
HNUmcc/STAR
RNA-seq aligner
HNUmcc/microDecon
An R package for removing contamination from metabarcoding (e.g., microbiome) datasets post-sequencing
HNUmcc/bwa
Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
HNUmcc/carnelian
HNUmcc/EukDetect
HNUmcc/ML_human_gut
HNUmcc/batch_server
HNUmcc/halla_legacy
Hierarchical All-against-All association testing is designed as a command-line tool to find associations in high-dimensional, heterogeneous datasets.
HNUmcc/carveme
CarveMe: genome-scale metabolic model reconstruction
HNUmcc/curatedMetagenomicData
Curated and processed metagenomic data through ExperimentHub