API reference

HAMSTA

Class

HAMSTA([k, S_thres, intercept_blksize])

Heritability estimation from admixture mapping summary statistics

Functions

HAMSTA.fit(S, intercept_design, N[, Z, ...])	Fit to compute likelihood and MLE
HAMSTA.compute_thres(fwer, U, S, intercept)	Compute significant threshold at given family-wise error rate
HAMSTA.to_dict()	Summarize estimation result in dict
HAMSTA.to_dataframe()	Summarize estimation result in dataframe

I/O

read_sumstat(fname[, Z_colname])	Summary statistics reader
read_global_ancestry(fname, sample_colname, ...)	Global ancestry reader
read_rfmixfb(fname, ancestry[, exclude])	Reader for RFMIX .fb.tsv output
read_zarr(fname, ancestry[, exclude])	Reader for xarray stored in .zarr

Preprocess

SVD(A[, Q, LAD, k])

SVD, with covariate and output options.