Geneformer / geneformer /in_silico_perturber_stats.py

Commit History

Re-update stats to handle case of empty alt_states
78517d8

Christina Theodoris commited on

Add handling for case of alt_states being empty list
9e8dbe5

Christina Theodoris commited on

Fixed error with perturbing individual genes and updated ways to specify cell_states_to_model (#146)
9169bfd

ctheodoris davidjwen commited on

Add sorting for aggregating data for goal state shifts
50e921d

Christina Theodoris commited on

Update isp to allow modeling single perturbation in multiple cells as batches
acd253c

Christina Theodoris commited on

Correct order of state dict in in silico perturber stats and tensor dims of alt state emb in in silico perturber
3d06203

Christina Theodoris commited on

Add explanation of output columns and sort by largest shift
3072225

Christina Theodoris commited on

Modify documentation for modeling only 2 cell states
019165f

Christina Theodoris commited on

Add instructions for modeling only 2 states and modify stats script for that option
912860d

Christina Theodoris commited on

Add mixture model option for gene-gene interaction stats
dc1481d

Christina Theodoris commited on

Add stats with mixture model to determine whether test perturbation is in impact component
d20ad0a

Christina Theodoris commited on

Fixes to stats and adding gene dict attempt number 2 (#13)
42e9bf9

ctheodoris commited on

Rename isp stats methods to clarify mode.
188029e

ctheodoris commited on

Reorder/sort isp stats output in vs_null mode
f4fea1e

ctheodoris commited on

add in silico perturbation module
efec1c4

Christina Theodoris commited on