Function reference • aRchaic

All functions
`archaic_fit()`	Grade of Membership (GoM) model clustering of aDNA samples using DNA damage patterns
`archaic_plot()`	STRUCTURE plot and logo plot representation of the clusterring model from archaic_fit
`archaic_pool()`	Aggregating signature counts from MFF files from one or more studies (folders).
`archaic_prepare()`	Prepare and aggregate mismatch feature counts MFF files in a study
`archaic_view()`	Logo plot representation of an MFF file.
`base_probs_moderns`	A modern background probability distribution on the features - mismatch, flanking bases, strand breaks, position A list comprising of probability distribution on features such as mismatches, flanking bases, strand break bases and position of mismatch from the end of the read.
`decompose_theta()`	Decompose the theta matrix output from model_archaic into probabilities of different mismatch features
`filter_signatures_only_location()`	Function to extract signature counts for position along the read

Reference