sedimix

sedimix processes genomic sequences from archaeological sediment DNA samples to identify hominin sequences and generate summary statistics to assess pipeline reliability.

Key Features:

• Workflow framework: sedimix implements a Snakemake workflow for automated processing of hominin nuclear DNA sequences from archaeological sediments.
• Sensitivity and precision assessment: sedimix achieves high sensitivity and precision as demonstrated through simulations and comparisons to published studies.
• Reproducibility support: sedimix generates relevant summary statistics to assess the reliability of the pipeline and improve reproducibility across studies.

Scientific Applications:

• Hominin sediment DNA analysis: sedimix enables identification of hominin DNA from prehistoric sediments, including those dating to the Middle or Late Pleistocene, without destructive sampling.
• Ancient DNA research: sedimix supports data processing and reproducibility in studies extracting nuclear DNA from archaeological sediments.

Methodology:

sedimix uses simulations and comparisons to published studies to validate sensitivity and precision.