stereo.algorithm.spa_track.SpaTrack.ptime_gene_GAM¶
- SpaTrack.ptime_gene_GAM(data, n_jobs=-1)[source]¶
Fit GAM model by formula gene_exp ~ Ptime.
Call GAM_gene_fit() by multi-process computing to improve operational speed.
- Parameters:
data (
StereoExpData) – the object of data afterspt.filter_genes.n_jobs (
int) – The number of cores used for computing, by default, -1 means using all cores.
- Returns:
A DataFrame containing the columns as follows: - pvalue: calculated from GAM - model_fit: a goodness-of-fit measure. larger value means better fit - pattern: increase or decrease. drection of gene expression changes across time - fdr: BH fdr