数据与复现生物信息与基因组学FreedomIntelligence/OpenClaw-Medical-Skills数据与复现

bio-metagenomics-metaphlan

维护者 FreedomIntelligence · 最近更新 2026年4月1日

Marker gene-based taxonomic profiling using MetaPhlAn 4. Provides accurate species-level relative abundances using clade-specific markers. Use when accurate taxonomic profiling is needed and computational resources are limited, or for comparison with HMP/other MetaPhlAn studies.

OpenClawNanoClaw分析处理复现实验bio-metagenomics-metaphlan🧬 bioinformatics (gptomics bio-* suite)bioinformatics — metagenomics & microbiomemarker

原始来源

FreedomIntelligence/OpenClaw-Medical-Skills

https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-metagenomics-metaphlan

维护者: FreedomIntelligence
许可: MIT
最近更新: 2026年4月1日

技能摘要

来自 SKILL.md 的关键信息

2 min

核心说明

CLI：metaphlan sample.fastq --input_type fastq -o profile.txt。
Profile species composition of my metagenome" → Determine species-level relative abundances ，面向 shotgun metagenomic reads ，使用 clade-specific marker gene alignment. CLI：metaphlan sample.fastq --input_type fastq -o profile.txt。
MetaPhlAn 4 uses ~5M clade-specific markers ，面向 26，970 species-level genome bins. Supports both short reads (bowtie2) 、 long reads (minimap2)。
metaphlan sample.fastq.gz \ --input_type fastq \ --output_file profile.txt。

原始文档

SKILL.md 摘录

MetaPhlAn processes PE as single file or concatenated

metaphlan reads_R1.fastq.gz,reads_R2.fastq.gz
--input_type fastq
--output_file profile.txt
--mapout sample.map.bz2


## First run - save intermediate mapping

metaphlan sample.fastq.gz \
    --input_type fastq \
    --mapout sample.map.bz2 \
    --output_file profile.txt

## Rerun with different settings without realigning

metaphlan sample.map.bz2 \
    --input_type mapout \
    --output_file profile_v2.txt