trisicell.datasets.sublines_bwes

trisicell.datasets.sublines_bwes()[source]

Trisicell sublines bWES data.

The size is n_sublines × n_muts = 24 × 6653

Returns

An anndata in which .var contains information about the mutations.

.layers['trisicell_input'] the binary input genotype matrix used as
input to the Trisicell.

.layers['trisicell_output'] the binary input genotype matrix inferred by
Trisicell-boost(SCITE).

.layers['genotype'] noisy genotype matrix, 0: reference, 1: heterozygous
2: unknown and 3: homozygous_alt.

.layers['mutant'] number of mutant reads.

.layers['total'] number of total reads.

Return type

anndata.AnnData

Examples

>>> adata = tsc.datasets.sublines_bwes()
>>> adata
AnnData object with n_obs × n_vars = 24 × 6653
    var: 'kind', 'amino_acid_change', 'ensemble', 'gene', 'chrom', 'position', ...
    layers: 'genotype', 'mutant', 'total', 'trisicell_input', 'trisicell_output'