Pinned Repositories
abricate
:mag_right: :pill: Mass screening of contigs for antimicrobial and virulence genes
ARG-contig_mobilome_analysis
This pipeline performs a mobilome analyses on previously selected contigs
BASALT
dada2
Accurate sample inference from amplicon data with single nucleotide resolution
EasyMetagenome
Easy Metagenome Pipeline 2019 (1.0)
gotranseq
convert nucleic sequence in protein sequence
Impacts-of-micropollutants-on-freshwater-microbiome
MetaCHIP
Horizontal gene transfer (HGT) identification pipeline
MicrobeCensus
MicrobeCensus estimates the average genome size of microbial communities from metagenomic data
SqueezeMeta
A complete pipeline for metagenomic analysis
AnyiHu's Repositories
AnyiHu/ARG-contig_mobilome_analysis
This pipeline performs a mobilome analyses on previously selected contigs
AnyiHu/ARGfams
Fast and robust identificaiton of antibiotic resistance genes (ARGs) from microbial genomes and metagenome assemblies using ARGfams, a high-quality and manually cruated subdatabase of profile hidden Markov models for ARGs
AnyiHu/args_oap
ARGs-OAP: Online Analysis Pipeline for Antibiotic Resistance Genes Detection from Metagenomic Data Using an Integrated Structured ARG Database
AnyiHu/biobakery
bioBakery tools for meta'omic profiling
AnyiHu/bit
Bioinformatics Tools
AnyiHu/cariaco_basin
Scripts for analyses of particle-associated and free-living metagenomic and metatranscriptomic datasets from the permanently anoxic water column of the Cariaco Basin, Venezuela as part of the CARIACO Ocean Time Series project.
AnyiHu/CoverM
Read coverage calculator for metagenomics
AnyiHu/crAssZA
AnyiHu/deepTools
Tools to process and analyze deep sequencing data.
AnyiHu/DRAM
Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes
AnyiHu/EdwardsLab
Code from the Edwards lab, including bioinformatics, image analysis and more. All this code is created and maintained by folks at Rob Edwards' bioinformatics lab at Flinders University
AnyiHu/EukDetect
AnyiHu/fastp
An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
AnyiHu/genomad
geNomad: Identification of mobile genetic elements
AnyiHu/gggenomes
A grammar of graphics for comparative genomics
AnyiHu/GToTree
A user-friendly workflow for phylogenomics
AnyiHu/gut_resistome-useful
This is for manuscript of study about resistome in human and food animal gut.
AnyiHu/iMetaPlot
iMeta teaches you to plot
AnyiHu/MetaBinner
AnyiHu/metapi
A general metagenomics data mining system focus on robust microbiome research
AnyiHu/mfqe
FASTA/FASTQ extractor for multiple sets of read names
AnyiHu/Mito-COI
Mito-COI database
AnyiHu/mobileOG-db
code repo for mobileOG-db
AnyiHu/PhaGCN2.0
AnyiHu/Phosphorus-cycling-database
This is a comprehensive database for fast and accurately analyzing the phosphorus cycling database.
AnyiHu/salmon
🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
AnyiHu/singlem
De-novo OTUs from shotgun metagenomes
AnyiHu/TBtools
GUI/CommandLine Tool Box for biologistists to utilize NGS data.
AnyiHu/VirusTaxo_Hierarchical
Implementation of https://doi.org/10.1016/j.ygeno.2022.110414
AnyiHu/What_the_Phage
WtP: Phage identification via nextflow and docker or singularity