diff --git a/src/agora/io/signal.py b/src/agora/io/signal.py index 158d522dbd19fc656999a6a7df2955f4157868c3..52b3122f6b67375f685fbe701b91a4113cbdf77e 100644 --- a/src/agora/io/signal.py +++ b/src/agora/io/signal.py @@ -101,9 +101,7 @@ class Signal(BridgeH5): ) return 300 - def retained( - self, signal, cutoff=global_parameters.signal_retained_cutoff - ): + def retained(self, signal, cutoff=0): """Get retained cells for a Signal or list of Signals.""" if isinstance(signal, str): # get data frame diff --git a/src/aliby/global_parameters.py b/src/aliby/global_parameters.py index 9fa29a4728780ef10c757a8273f8d36c496d472c..92b58f8969de09ee31c558019ccabe52a01338c5 100644 --- a/src/aliby/global_parameters.py +++ b/src/aliby/global_parameters.py @@ -36,6 +36,3 @@ fluorescence_functions = [ "imBackground", "max5px_median", ] - -# default fraction of time a cell must be in the experiment to be kept by Signal -signal_retained_cutoff = 0.8