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PeakMap ms_matplotlib#

This example plots a peakmap with marginals by setting add_marginals=True A chromatogram is shown along the x-axis and a spectrum is shown along the y-axis.

plot peakmap marginals ms matplotlib
<Figure size 1000x1000 with 3 Axes>


import pandas as pd
from pyopenms_viz.util import download_file

pd.options.plotting.backend = "ms_matplotlib"

url = "https://zenodo.org/records/17904352/files/ionMobilityTestFeatureDf.tsv?download=1"
local_path = "ionMobilityTestFeatureDf.tsv"
download_file(url, local_path)
df = pd.read_csv(local_path, sep="\t")

df.plot(
    kind="peakmap",
    x="rt",
    y="mz",
    z="int",
    add_marginals=True,
    aggregate_duplicates=True,
)

Total running time of the script: (0 minutes 0.413 seconds)

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