Output

Output#

class alphagenome.models.v1.dna_output.Output(atac=None, cage=None, dnase=None, rna_seq=None, chip_histone=None, chip_tf=None, splice_sites=None, splice_site_usage=None, splice_junctions=None, contact_maps=None, procap=None)[source]#

Model outputs for a single prediction.

atac#

TrackData of type OutputType.ATAC.

cage#

TrackData of type OutputType.CAGE.

dnase#

TrackData of type OutputType.DNASE.

rna_seq#

TrackData of type OutputType.RNA_SEQ.

chip_histone#

TrackData of type OutputType.CHIP_HISTONE.

chip_tf#

TrackData of type OutputType.CHIP_TF.

splice_sites#

TrackData of type OutputType.SPLICE_SITES.

splice_site_usage#

TrackData of type OutputType.SPLICE_SITE_USAGE.

splice_junctions#

JunctionData of type OutputType.SPLICE_JUNCTIONS.

contact_maps#

TrackData of type OutputType.CONTACT_MAPS.

procap#

TrackData of type OutputType.PROCAP.

Methods

filter_ontology_terms(ontology_terms)

Filters tracks to specific ontology terms.

filter_output_type(output_types)

Filters tracks to specific output type.

filter_to_strand(strand)

Filters tracks by DNA strand.

get(output_type)

Gets the track data for the specified output type.

map_track_data(fn)

Applies a transformation function to each TrackData.

resize(width)

Resizes all track data to a specified width.