def __init__(self, parent=None, master=None, **kwargs):
super().__init__(parent, **kwargs)
self._group_var = self.DEFAULT_GROUP_VAR
self._master = master
self._master.input_data_changed.connect(self._set_model)
self.setLayout(QVBoxLayout())
form = QFormLayout()
cpm_b = QRadioButton("Counts per million", checked=True)
med_b = QRadioButton("Median")
self.group = QButtonGroup()
self.group.buttonClicked.connect(self._on_button_clicked)
for i, button in enumerate([cpm_b, med_b]):
index = index_to_enum(Normalize.Method, i).value
self.group.addButton(button, index - 1)
form.addRow(button)
self.group_by_check = QCheckBox("Cell Groups: ",
enabled=self.DEFAULT_GROUP_BY)
self.group_by_check.clicked.connect(self.edited)
self.group_by_combo = QComboBox(enabled=self.DEFAULT_GROUP_BY)
self.group_by_model = DomainModel(order=(DomainModel.METAS,
DomainModel.CLASSES),
valid_types=DiscreteVariable,
alphabetical=True)
self.group_by_combo.setModel(self.group_by_model)
self.group_by_combo.currentIndexChanged.connect(self.changed)
self.group_by_combo.activated.connect(self.edited)
form.addRow(self.group_by_check, self.group_by_combo)
self.layout().addLayout(form)
self._set_model()
def parameters(self):
method = index_to_enum(SelectMostVariableGenes.Method,
self.group.checkedId())
return {
"n_genes": self._n_genes,
"method": method,
"compute_stats": self.stats_check.isChecked(),
"n_groups": self._n_groups
}
def __init__(self, parent=None, **kwargs):
super().__init__(parent, **kwargs)
self.setLayout(QVBoxLayout())
self._n_genes = self.DEFAULT_N_GENS
self._n_groups = self.DEFAULT_N_GROUPS
form = QFormLayout()
self.n_genes_spin = QSpinBox(minimum=1,
maximum=10**6,
value=self._n_genes)
self.n_genes_spin.valueChanged[int].connect(self._set_n_genes)
self.n_genes_spin.editingFinished.connect(self.edited)
form.addRow("Number of genes:", self.n_genes_spin)
self.layout().addLayout(form)
disp_b = QRadioButton("Dispersion", checked=True)
vari_b = QRadioButton("Variance")
mean_b = QRadioButton("Mean")
self.group = QButtonGroup()
self.group.buttonClicked.connect(self._on_button_clicked)
for i, button in enumerate([disp_b, vari_b, mean_b]):
index = index_to_enum(SelectMostVariableGenes.Method, i).value
self.group.addButton(button, index - 1)
form.addRow(button)
self.stats_check = QCheckBox("Compute statistics for",
checked=self.DEFAULT_COMPUTE_STATS)
self.stats_check.clicked.connect(self.edited)
self.n_groups_spin = QSpinBox(minimum=1, value=self._n_groups)
self.n_groups_spin.valueChanged[int].connect(self._set_n_groups)
self.n_groups_spin.editingFinished.connect(self.edited)
box = QHBoxLayout()
box.addWidget(self.stats_check)
box.addWidget(self.n_groups_spin)
box.addWidget(QLabel("gene groups."))
box.addStretch()
self.layout().addLayout(box)
def parameters(self):
return {
"base":
index_to_enum(LogarithmicScale.Base, self.base_cb.currentIndex())
}
def parameters(self):
index = self.group_by_combo.currentIndex()
group_var = self.group_by_model[index] if index > -1 else None
group_by = self.group_by_check.isChecked()
method = index_to_enum(Normalize.Method, self.group.checkedId())
return {"group_var": group_var, "group_by": group_by, "method": method}
def parameters(self):
cond = index_to_enum(Binarize.Condition, self.cond_cb.currentIndex())
return {"condition": cond, "threshold": self._threshold}