magic_microbiome

The magic microbiome collects tools, algorithms, workflows, and databases for microbiome.

• 扩增子数据分析相关的工具和数据库 | tools and databases for amplicon data

• 工作流程-宏基因组和分离菌 | workflows for metagenomes and isolates

• 微生物基因组的资源 | microbial genomes resources

• 测序数据的质控，basecall，校正，抛光 | basecall, qc, correct, polish

• 比对，多序列比对，序列聚类 | alignment, multi-sequence alignment, sequence cluster

• 组装的工具，包括短读长、长读长、混合、以及hifi组装，抛光 | tool for assembly of short-reads, long-reads, hybrid, and hifi, and polish of assemblies

• 分箱、菌株以及评估 | binning, strain analysis, and assessment

• 基因，元件和肽预测 | genes, elements, and peptides prediction

• 分类/剖析：read，contig, MAG和strain | metagenome profile based on read, contig, mag and strain

• 注释相关的工具和数据库 | tools and databases for annotation

• 比较基因组学 | comparative genomics

• 比对，基因组和组装结果的可视化 | visualization of alignment/msa, genomes, and assemblies

• 建树及树的可视化 | build a tree and visualization

• 宏转录组 | metatranscriptomics

Contribution

Feel free to contribute and submit a PR.

Updates

Star to follow the updates.

Contact

This repository was created by Jie Li.