pyprobound.external

Import models from ProBound, MotifCentral, JASPAR, and HOCOMOCO.

Functions

get_fit_final(path)	Gets the best model fit from the fit.models.json output by ProBound.
import_hocomoco(model)	Parses a PSAM from a model in HOCOMOCO 11.
import_jaspar(fit_id)	Parses a PSAM from an ID in JASPAR.
import_motif_central(fit_id)	Parses a PSAM from a fit_id in MotifCentral.
parse_probound_aggregate(fit_final, modes, ...)	Parses all binding modes and interactions of a round into an Aggregate.
parse_probound_alphabet(fit_final)	Parses the alphabet used in a ProBound fit into an Alphabet.
parse_probound_interactions(fit_final, ...)	Parses all interactions associated with an experiment in a ProBound fit.
parse_probound_model(fit_final, config, ...)	Parses all rounds associated with an experiment in a ProBound fit.
parse_probound_modes(fit_final, layer_specs, ...)	Parses all modes associated with an experiment in a ProBound fit.
parse_probound_psam(fit_final, mode_idx)	Parses a single PSAM from a ProBound fit.
parse_probound_rounds(fit_final, modes, ...)	Parses all rounds associated with an experiment in a ProBound fit.
parse_probound_tables(fit_final, dataframes)	Parses the count tables used in a ProBound fit into CountTables.