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

bio-phasing-imputation-genotype-imputation

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

Impute missing genotypes using Michigan/TOPMed imputation servers.

OpenClawNanoClaw分析处理复现实验bio-phasing-imputation-genotype-imputation🧠 bioos extended suitebioos extended bioinformatics suiteimpute

原始来源

FreedomIntelligence/OpenClaw-Medical-Skills

https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-phasing-imputation-genotype-imputation

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

java -jar beagle.jar \ gt=study.vcf.gz \ ref=reference_panel.vcf.gz \ map=genetic_map.txt \ out=imputed。
bcftools concat imputed.chr*.vcf.gz -Oz -o imputed.all.vcf.gz bcftools index imputed.all.vcf.gz。

原始文档

SKILL.md 摘录

Impute Per Chromosome

for chr in {1..22}; do
    java -Xmx32g -jar beagle.jar \
        gt=study.chr${chr}.vcf.gz \
        ref=ref.chr${chr}.vcf.gz \
        map=genetic_maps/plink.chr${chr}.GRCh38.map \
        out=imputed.chr${chr} \
        gp=true \
        nthreads=8
done

## Newer IMPUTE software

impute5 \
    --h reference.bcf \
    --m genetic_map.txt \
    --g study.vcf.gz \
    --r chr22 \
    --o imputed.chr22.vcf.gz \
    --threads 8

Often used via web server, but can run locally

minimac4
--refHaps reference.m3vcf.gz
--haps study.vcf.gz
--prefix imputed
--format GT,DS,GP
--cpus 8

适用场景

Use bio-phasing-imputation-genotype-imputation ，用于 genomics 、 bioinformatics workflows。
Apply bio-phasing-imputation-genotype-imputation to sequencing，variant，或 omics analysis tasks。