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Cell2net 0.0.6.dev0 documentation

  • Installation
  • Tutorials
  • API reference
  • Changelog
  • References
  • GitHub
  • Installation
  • Tutorials
  • API reference
  • Changelog
  • References
  • GitHub

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  • Preprocessing: pp
    • cell2net.preprocessing.binarize
    • cell2net.preprocessing.calculate_depth
    • cell2net.preprocessing.collapse_consecutive_values
    • cell2net.preprocessing.fragments_to_coverage
    • cell2net.preprocessing.fragment_to_bigwig
    • cell2net.preprocessing.split_fragments
    • cell2net.preprocessing.get_gene_tss_coord
    • cell2net.preprocessing.add_gene_tss_coord
    • cell2net.preprocessing.get_motifs_from_jaspar
    • cell2net.preprocessing.filter_motifs_by_genes
    • cell2net.preprocessing.match_motif
    • cell2net.preprocessing.tf_to_gene
    • cell2net.preprocessing.add_peaks
    • cell2net.preprocessing.peak_to_gene
    • cell2net.preprocessing.add_dna_sequence
    • cell2net.preprocessing.add_variants_to_sequence
    • cell2net.preprocessing.dinucleotide_shuffle_one_hot
    • cell2net.preprocessing.dinucleotide_shuffle_str
    • cell2net.preprocessing.one_hot_to_seq
    • cell2net.preprocessing.random_seq
    • cell2net.preprocessing.seq_to_one_hot
    • cell2net.preprocessing.update_sequence_with_variants
  • Evaluation: eval
    • cell2net.evaluation.causal_var_enrichment_in_peaks
  • Prediction: pd
    • cell2net.prediction.data.get_dataloader
  • Interpretation: ip
    • cell2net.interpretation.tf_attr
    • cell2net.interpretation.tf_to_gene
    • cell2net.interpretation.peak_attr
    • cell2net.interpretation.peak_to_gene
    • cell2net.interpretation.seq_attr
  • API reference
  • Evaluation: eval

Evaluation: eval#

Peak-to-gene links#

evaluation.causal_var_enrichment_in_peaks(...)

Compute the enrichment of causal variants in peak regions linked to genes.

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cell2net.preprocessing.update_sequence_with_variants

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cell2net.evaluation.causal_var_enrichment_in_peaks
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  • Peak-to-gene links
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