mira.utils.fetch_binding_sites#
- mira.utils.fetch_binding_sites(atac_adata, factor_type='motifs', *, id)#
Returns .var field of atac_adata, but subset to only contain peaks which are predicted to bind a certain transcription factor.
- Parameters
- atac_adataanndata.AnnData
AnnData object with accessibility features, annotated with factor binding predictions
- factor_type{“motifs”, “chip”}, default = “motifs”
Which type of factor to look for id.
- idstr
Unique identifier for transcription factor binding. JASPAR ID in the case of motifs, or cistrome ID for ChIP samples.
- Returns
- pd.DataFramesubset of atac_adata.var