`epiout.gene`

Module Contents

Classes

Predict aberrant genes based on the features from promoters, proximal

Functions

import_onnxruntime()

Import optional dependency onnxruntime if installed in env,

epiout.gene.import_onnxruntime()

Import optional dependency onnxruntime if installed in env,: otherwise raise an error.

class epiout.gene.GeneLink(annotation, annotation_gtf, interaction)

Predict aberrant genes based on the features from promoters, proximal: and distal enhancers.

_peak_gene(self)

_promoter_gene(self)

promoter_gene(self, df_result): Calculate promoter outlier scores for each gene.

_promoters(self)

_melt(self, df, value_name)

promoter_features(self, result, eps=1e-16): Calculate promoter outlier scores for each gene.

_proximal_gene(self)

proximal_gene(self, df_result): Calculate proximal enhancer scores for each gene.

proximal_features(self, df_result)

_distal_gene(self)

distal_gene(self, df_result): Calculate distal enhancer scores for each gene.

distal_features(self, df_result): Calculate distal enhancer scores for each gene.

features(self, result)

Prepare features for prediction from promoters, proximal and: distal enhancers.

predict(self, result)

Predict aberrant genes based on the features from promoters,: proximal and distal enhancers.