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PoonLab / HexSE

Simulation of molecular evolution with overlapping reading frames
GNU General Public License v3.0
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Write instructions for running HBV example #105

Closed ArtPoon closed 2 years ago

ArtPoon commented 3 years ago

Incorporate into README

horaciobam commented 3 years ago

When running example for hbv from .gb file, many orfs were omitted:

WARNING:root:Omitted orfs:  {'coords': [(2308, 3182), (0, 1625)], 'omega_values': [0.2346197728988115, 0.5240109409265213, 0.8559917299127905, 1.5853775562618768], 'omega_shape': 2.0, 'omega_classes': 4}  {'coords': [(2849, 3182), (0, 837)], 'omega_values': [0.2346197728988115, 0.5240109409265213, 0.8559917299127905, 1.5853775562618768], 'omega_shape': 2.0, 'omega_classes': 4}  {'coords': [(3173, 3182), (0, 837)], 'omega_values': [0.2346197728988115, 0.5240109409265213, 0.8559917299127905, 1.5853775562618768], 'omega_shape': 2.0, 'omega_classes': 4}

Note: We should not assign omega values to a reading frame before the verification step.

horaciobam commented 2 years ago

README has been updated