On branch conditional_independent
pyloh/model/poisson_model.py CNV and LOH changed to conditional independent
On branch conditional_independent
minor change
On branch conditional_independent
poisson_model.py: new PoissonLatentVariables finished
/model/utils.py: get_P_CG, added
On branch conditional_independent

poisson_model.py: new PoissonModelParameters finished, but not tested.
On branch conditional_independent
model/poisson_model.py: PoissonModelParameters testded
On branch conditional_independent
poisson_model.py: PoissonModelLikelihood finished
On branch conditional_independent
poisson_model.py: PoissonModelLikelihood critical bug fixed
On branch conditional_independent
phi_range_2nd added for PoissonModelParameters.__update_phi
On branch conditional_independent
LOH_status 'NONE' bug fixed for PoissonModelParameters
On branch conditional_independent
commit before switching from allele_number_max -> copynumber_max
On branch conditional_independent
allele_number_max -> copynumber_max
On branch conditional_independent
PoissonModelParameters._update_phi -> bisection
On branch conditional_independent
constants.py: SIGMA 0.001 -> 0.01
pyloh/model/utils.py: get_P_CG changed, for copynumber = 2 or 4, only AB or AABB has large probability
On branch conditional_independent
pyloh/constants.py: SIGMA 0.01 -> 0.001
On branch conditional_independent
copynumber_max -> allelenumber_max
commit before using posterior
On branch conditional_independent
log-likelihood -> posterior
On branch conditional_independent
pyloh/model/utils.py: using edit distance to get omega
On branch conditional_independent
comments deleted, conditional_independent branch stable version
On branch conditional_independent
poisson_model.py, model/utils.py: CNV -> CNA
On branch conditional_independent
pyloh/postprocess/plot.py: genome -> sample