VueCore

• implements at the moment not too many figures

• will be used to define plotting functions for certain analysis types in our core analysis library

• at the moment only support the plotly backend

import pathlib

import pandas as pd
from vuecore.plots.basic.histogram import create_histogram_plot

Proteomics data example

dir_data = pathlib.Path("data")
df = (
    pd.read_csv(dir_data / "proteins" / "proteins.csv", index_col=0)
    .rename_axis("Protein_ID", axis=1)
    .stack()
    .reset_index(name="Intensity")
)
df

	Reference	Protein_ID	Intensity
0	DMSO_rep1	A5A613	27.180209
1	DMSO_rep1	P00350	28.151576
2	DMSO_rep1	P00363	30.247131
3	DMSO_rep1	P00370	27.459171
4	DMSO_rep1	P00393	26.823758
...	...	...	...
15084	Suf_rep4	Q47710	27.071346
15085	Suf_rep4	Q57261	26.643479
15086	Suf_rep4	Q59385	27.847610
15087	Suf_rep4	Q7DFV3	27.605449
15088	Suf_rep4	Q93K97	26.177716

15089 rows × 3 columns

# to be continued
# Generate the advanced histogram plot
fig = create_histogram_plot(
    data=df,
    x="Intensity",
    color="Reference",
    barmode="overlay",
    histnorm="probability density",
    title="Protein intensities by sample",
    subtitle="Histogram with probability density normalized",
    labels={"Intensity": "Protein Intensity", "Reference": "Sample"},
    hover_data=["Protein_ID"],
    opacity=0.75,
)
fig

For now vuecore is built on top of ploltly:

type(fig)

plotly.graph_objs._figure.Figure