Viewing the hypothetical impscores about bpnet HOT 2 OPEN

In general, you can generate hypothetical contribution scores for a sequence using contrib_scoremethod on SeqModel as done here: https://github.com/kundajelab/bpnet/blob/master/bpnet/cli/contrib.py#L238-L241.

Throughout the codebase, 'imp' or 'contrib' refer to hyp_contrib * dna_sequence, where dna_sequence is one-hot encoded (as you correctly inferred).

For accessing hypothetical contribution scores of patterns produces by TF-MoDISco you can access the hyp_contrib values of the Pattern class https://github.com/kundajelab/bpnet/blob/master/bpnet/modisco/core.py#L42. You can also use pattern.plot(kind='hyp_contrib')method to visualize the hypothetical contributions of a pattern. A list of patterns from a modisco run can be obtained from ModiscoFile class (.patterns()) https://github.com/kundajelab/bpnet/blob/master/bpnet/modisco/files.py#L74.

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Thank you, this is very helpful information.

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