phlower.pl.plot_trajectory_harmonic_points

phlower.pl.plot_trajectory_harmonic_points(adata: AnnData, full_traj_matrix_flatten='full_traj_matrix_flatten', clusters='trajs_clusters', evector_name=None, retain_clusters=[], dims=[0, 1], label=True, labelsize=10, labelstyle='text', node_size=2, show_legend=False, legend_loc='center left', bbox_to_anchor=(1, 0.5), markerscale=4, ax=None, sample_ratio=0.1, color_palette=['#d60000', '#8c3bff', '#018700', '#00acc6', '#97ff00', '#ff7ed1', '#6b004f', '#ffa52f', '#573b00', '#005659', '#0000dd', '#00fdcf', '#a17569', '#bcb6ff', '#95b577', '#bf03b8', '#645474', '#790000', '#0774d8', '#fdf490', '#004b00', '#8e7900', '#ff7266', '#edb8b8', '#5d7e66', '#9ae4ff', '#eb0077', '#a57bb8', '#5900a3', '#03c600', '#9e4b00', '#9c3b4f', '#cac300', '#708297', '#00af89', '#8287ff', '#5d363b', '#380000', '#fdbfff', '#bde6bf', '#db6d01', '#93b8b5', '#e452ff', '#2f5282', '#c36690', '#54621f', '#c49e72', '#038287', '#69e680', '#802690'], **args)

Plot the trajectory groups in harmonic t-map in 2D space

Parameters

adata: AnnData

an Annodata object

full_traj_matrix_flatten: str

key of the full trajectory matrix in adata.uns, default is ‘full_traj_matrix_flatten’

clusters: str

key of the clusters in adata.uns, default is ‘trajs_clusters’

evector_name: str

key of the eigen vector in adata.uns, default is None

retain_clusters: list

clusters to be retained, default is [] to use all

dims: list

dimensions to plot, default is [0,1]

label: bool

whether to show label, default is True

labelsize: float

label size, default is 10

labelstyle: str

label style, default is ‘text’

node_size: float

node size, default is 2

show_legend: bool

whether to show legend, default is False

legend_loc: str

legend location, default is ‘center left’

bbox_to_anchor: tuple

bbox_to_anchor, default is (1, 0.5)

markerscale: float

marker scale, default is 4

ax: matplotlib axis

axis to plot, default is None

sample_ratio: float

sample ratio of the cells to be plotted, default is 0.1

color_palette: list

color palette to use, default is sns.color_palette(cc.glasbey, n_colors=50).as_hex()