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e8edb9d | 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 | """Layer name constants and defaults for scPTR."""
# Layer names
UNSPLICED = "unspliced"
SPLICED = "spliced"
SMOOTHED_UNSPLICED = "Mu"
SMOOTHED_SPLICED = "Ms"
GAMMA = "gamma"
PT_VELOCITY = "pt_velocity"
VELOCITY_S = "velocity_S"
# var columns
BETA = "beta"
TF_SCORE = "tf_score"
PTF_SCORE = "ptf_score"
# obs columns
PT_STATE = "pt_state"
# uns keys
UNS_KEY = "scptr"
# Defaults
DEFAULT_N_NEIGHBORS = 30
DEFAULT_BANDWIDTH = "adaptive"
DEFAULT_BETA_QUANTILE = 0.95
DEFAULT_CLIP_QUANTILE = 0.99
DEFAULT_GENE_BATCH_SIZE = 500
DEFAULT_LEIDEN_RESOLUTION = 1.0
DEFAULT_MIN_UNSPLICED_COUNTS = 10
DEFAULT_MIN_UNSPLICED_CELLS = 10
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