Tools: tl

Functions for computing mutation spectra, calculating rates, and identifying mutation patterns.

Mutation spectra

tl.compute_spectrum(adata[, count_strategy, ...])	Compute 96-channel mutation spectrum for each cell/sample or per private mutation group.
tl.compute_spectrum_from_mask([adata, ...])	Compute 96-channel mutation spectrum from a boolean mask of variants.
tl.normalize_spectrum(adata, key[, method, ...])	Normalize a mutation spectrum by various strategies.

Normalization

tl.compute_callable_sites(adata, min_depth)

Compute the number of callable sites per cell/sample.

Pattern identification

tl.private_mutations(adata[, groupby, ...])

Identify mutations that are private (unique) to each cell/sample or group.