abg_emp_hmp: microbial source tracking of New York African Burial Ground soils against EMP and HMP reference cohorts
abg_emp_hmp: microbial source tracking of New York African Burial Ground soils against EMP and HMP reference cohorts
Reproducible analysis scripts for microbial source tracking of centuries-old burial soils from the New York African Burial Ground (NYABG). The pipeline compares NYABG burial microbiomes (70 burial samples, 6 controls) with Earth Microbiome Project (17,482 environmental samples) and Human Microbiome Project (4,743 body-site samples) reference cohorts at genus level. Includes FEAST source tracking, IndVal indicator species, ANCOM-BC2 and ALDEx2 differential abundance with cross-method consensus, body-site classification, decontamination, and a full sensitivity-and-robustness battery covering rarefaction depth, prevalence filter thresholds, body-region confounds, pseudoreplication, cranial proximity, soil matrix partitioning, and EMP holdout null distributions.
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FEAST, Human Microbiome Project, burial soils, microbiome, source tracking, bioinformatics, 16S rRNA, ancient DNA, Earth Microbiome Project
FEAST, Human Microbiome Project, burial soils, microbiome, source tracking, bioinformatics, 16S rRNA, ancient DNA, Earth Microbiome Project
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