pupil_timescales_dLGN/parameters.py

"""
Settings for analysis and plotting.
"""
import numpy as np
from matplotlib import pyplot as plt
from matplotlib import cm as colormaps
from matplotlib.colors import to_rgb

SERVERPATH = '/mnt/hux/mudata'
DATAPATH = 'data/'
FIGUREPATH = 'figures/'
FIGSAVEFORMAT = '.svg'

LABELFONTSIZE = 6
COLORS = {
    'spk': 'black',
    'tonicspk': 'C0',
    'burst': 'C3',
    'pupil': 'black',
    'run': 'green',
    'sit': 'gray',
    'imfs': colormaps.viridis,
    'hht': 'black',
    'spontaneous': 'gray',
    'sparsenoise': 'pink',
    'dark': 'black',
    'natmov': 'darkblue',
    'natmov_opto': 'darkblue',
    'elevation': list(to_rgb('purple')) + [0.5],
    'azimuth': 'purple',
    'saccade': 'purple',
    'phasebin2': 'mediumaquamarine',
    'phasebin1': 'violet'
}
plt.rcParams['figure.dpi'] = 180
plt.rcParams['axes.labelsize'] = LABELFONTSIZE
plt.rcParams['xtick.labelsize'] = LABELFONTSIZE 
plt.rcParams['ytick.labelsize'] = LABELFONTSIZE 
plt.rcParams['legend.fontsize'] = LABELFONTSIZE 


NPUPILAREABINS = 10
NGAMSPLINES = 20

MINRATE = 0.01 # spikes / second
BURSTCRITERIA = '(fp_dtsilent BETWEEN 0.099 and 0.101) AND (fp_dtburst BETWEEN 0.0039 AND 0.0041)'

FIG1BEXAMPLEKEY = {'m': 'BL6_2014_0191', 's': 6, 'e': 4, 'u': 8}
FIG1BEXAMPLETRANGE = 220, 520  # seconds
FIG1BTBINWIDTH = 2.5  # seconds
FIG1DEXAMPLEKEY = {'m': 'BL6_2014_0191', 's': 6, 'e': 4}
FIG1DEXAMPLEIMF = 2
FIG2BEXAMPLEKEY = {'m': 'PVCre_2019_0002', 's': 8, 'e': 8, 'u': 2}
FIG2BEXAMPLEIMF = 2
FIG2BEXAMPLETRANGE = 360, 420
FIG5AEXAMPLEKEY = {'m':'PVCre_2018_0003', 's':3, 'e':3, 'u':53}

# Locomotion bout detection
RUNTHRESHOLD = 1
MINRUNTIME = 2
MAXSITTIME = 2
MINRUNPROP = 0.5

# MAXIBI = 0.5

NIMFCYCLES = 4
NSPIKES = 8
NSHUFFLES = 1000
SHUFFLE_BINWIDTH = 0.3 # seconds

FREQUENCYBINS = np.logspace(-3, 0, 7)
FREQUENCYXPOS = np.log10(FREQUENCYBINS[:-1]) + 0.25
FREQUENCYTICKS = np.linspace(-3, 0, 4)
FREQUENCYTICKLABELS = ["$10^{%d}$" % tick for tick in FREQUENCYTICKS]
PHASEBINS = np.linspace(-np.pi, np.pi, 9, endpoint=True)
PHASETICKS = PHASEBINS[::4]
PHASETICKLABELS = ['-\u03C0', '0', '\u03C0']

TRIGGEREDAVERAGES = {
    'run': {
        'dt':       0.05,
        'bw':       0.1,
        'pre':      -5,
        'post':     5,
        'baseline': [-5, -3]
        },
    'sit': {
        'dt':       0.05,
        'bw':       0.1,
        'pre':      -5,
        'post':     5,
        'baseline': [-5, -3]
        },
    'saccade': {
        'dt':       0.05,
        'bw':       0.1,
        'pre':      -5,
        'post':     5,
        'baseline': [-5, -3]
        },
    'trial_on': {
        'dt':       0.05,
        'bw':       0.1,
        'pre':      -1,
        'post':     5,
        'baseline': [-1, 0]
        }
    }

BEHAVEXCLUSIONS = {
    'run':      [-2, 2],
    'sit':      [-1, 4],
    'saccade':  [-2, 2]
}