anvio 开源项目推荐（12 个）

merenlab /anvio

用于组学数据分析与可视化的平台

guyleonard /busco_hmms_for_anvio

Making BUSCO HMMs useable in Anvi'o.

Qasim-Hussain-Code /s.pneumoniae_anvio_pangenome

This repository contains the computational pipeline and scripts formulated to conduct a comprehensive pangenome analysis of 36 complete Streptococcus pneumoniae genomes utilizing the Anvi'o (v9) bioinformatics platform.

jungbluth /kb_anvio

该项目在 GitHub 上没有填写描述

Qasim-Hussain-Code /competitive_metagenomic_read_recruitment_workflow

An automated Anvi'o v9 Snakemake workflow for competitive metagenomic read recruitment. Resolves conserved sequence homologies to enable strain-level taxonomic profiling, population-level abundance estimation, and genome detection limits across environmental samples.

ndgayan /PanAnalyzer

PanAnalyzer is a powerful and integrated bioinformatics pipeline designed to streamline the process of genome analysis, moving from raw sequencing data to sophisticated, interactive pangenome visualization.

Qasim-Hussain-Code /comparative_gut_brain_axis_metagenomics

A genome-resolved metagenomics pipeline replicating the Sharon et al. (2019) gut-brain axis study. Features MEGAHIT de novo co-assembly, Bowtie2 competitive read recruitment, and Anvi'o single-nucleotide variant (SNV) microdiversity profiling.

Qasim-Hussain-Code /anvio_pangenomic_analysis_of_Chlamydia_trachomatis

A reproducible pangenomic analysis of seven Chlamydia trachomatis strains using anvi'o v9, exploring core and accessory gene clusters across different serovars and clinical isolates.

Qasim-Hussain-Code /anvio_pangenomics_analysis_of_Bacteroides

A comprehensive, automated pan-genomic analysis pipeline for Bacteroides species, utilizing the Anvi'o platform to resolve core and accessory genomic architectures and infer evolutionary dynamics.

Qasim-Hussain-Code /anvio_pangenomic_analysis_of_vibrio-jasicida

Pangenomic analysis of Vibrio jasicida using the anvi'o platform. Identifies 6,853 gene clusters across eight genomes via DIAMOND and MCL clustering, resolving core, accessory, and strain-specific gene content.

juliantom /Pangenomes_of_the_Human_Oral_Microbiome

Species-level pangenomes of the human oral microbiome constructed from eHOMD genomes using Anvi’o and reproducible Snakemake workflows.

Qasim-Hussain-Code /anvio_read_recruitment_analysis

This pipeline implements competitive fragment recruitment to map metagenomic sequence space against a representative reference genome. In microbial ecology, read recruitment provides a quantitative window into the evolutionary dynamics of natural populations by measuring nucleotide-level polymorphism and consensus sequence divergence.