metagenomic-classification 开源项目推荐（22 个）

FOI-Bioinformatics /flextaxd

FlexTaxD（灵活分类数据库）——创建、添加、合并不同的分类源（QIIME、GTDB、NCBI 等）并创建宏基因组数据库（如 kraken2、ganon 等）

muellan /metacache

用于宏基因组读段映射的内存高效、快速且精确的分类学分类系统

taxprofiler /taxpasta

TAXnomic Profile Aggregation and STAndardisation

prophyle /prophyle

Accurate, resource-frugal and deterministic DNA sequence classifier.

treangenlab /lemur

Lemur is a tool for rapid and accurate taxonomic profiling on long-read metagenomic datasets

EBI-Metagenomics /pipeline-v5

This repository contains all CWL descriptions of the MGnify pipeline version 5.0.

pfeiferd /genestrip

Genestrip - Efficient read classification, filtering and k-mer counting for selected groups of species

gdefazio /kMetaShot

kMetaShot is an alignment-free taxonomic classifier based on k-mer/minimizer counting for MAGs

rcs333 /CLOMP

🐴 CLinically Okay Metagenomic Pipeline 🐴

dubssieg /wisp

XGBoost implementation for bacteria family identification

sunbeam-labs /sbx_krakenhll

该项目在 GitHub 上没有填写描述

laurentnoe /iedera

subset and spaced seed design tool

bo1929 /CONSULT-II

Accurate taxonomic classification and abundance profiling using locality-sensitive hashing.

hivlab /discover-virome

discover-virome: identify and quantify viruses from metagenomic assemblies

zoey-rw /metagenomes_NEON

Code associated with Werbin et al. 2022, F1000 Research

pfeiferd /genestrip-db

A selection of databases for Genestrip

hsmurali /Transitive_Annotation

The impact of transitive annotation on the training of taxonomic classifiers

bersilin-robert1609 /CS6024-AACB-Metagenomic-Analysis

Contains all the code and data related to the CS6024 - Algorithmic Approaches to Computational Biology in the topic: Disease detection using metagenomic dataset

shbnmzr /graph-meta

Graph-Meta is a topology-aware learning framework designed to classify metagenomic contigs into four major biological classes: Prokaryotes, Viruses, Plasmids, and Microeukaryotes. By leveraging the assembly graph topology, the model resolves ambiguities in fragmented assemblies that traditional sequence-based classifiers often miss.

lbl-cbg /gtnet

The Genome Taxonomy Network for assigning microbial taxonomy to DNA sequences