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Population genomics

Shell 47.86% R 35.34% Python 16.81%

population-genomics's Introduction

Population-genomics

Population genomics

align paired reads to referance genome using BWA
add readgroups, mark duplicates and produce QC metrices using Picard
index and sort bam files using samtools
Call variants using FreeBayes
SNP filter using vcftools
FastSTRUCTURE plot
PCA plot
Demographic history

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