Normalization

A selection of reference compositions are included in pyrolite, and can be easily accessed with pyrolite.geochem.norm.get_reference_composition() (see the list at the bottom of the page for a complete list):

import matplotlib.pyplot as plt
import pandas as pd

import pyrolite.plot
from pyrolite.geochem.ind import REE
from pyrolite.geochem.norm import all_reference_compositions, get_reference_composition

chondrite = get_reference_composition("Chondrite_PON")

To use the compositions with a specific set of units, you can change them with set_units():

CI = chondrite.set_units("ppm")

The normalize_to() method can be used to normalise DataFrames to a given reference (e.g. for spiderplots):

fig, ax = plt.subplots(1)

for name, ref in list(all_reference_compositions().items())[::2]:
    if name != "Chondrite_PON":
        ref.set_units("ppm")
        df = ref.comp.pyrochem.REE.pyrochem.normalize_to(CI, units="ppm")
        df.pyroplot.REE(unity_line=True, ax=ax, label=name)

ax.set_ylabel("X/X$_{Chondrite}$")
ax.legend()
plt.show()

/home/docs/checkouts/readthedocs.org/user_builds/pyrolite/checkouts/main/pyrolite/plot/spider.py:276: UserWarning: Attempt to set non-positive ylim on a log-scaled axis will be ignored.
  ax.set_ylim(_ymin, _ymax)
/home/docs/checkouts/readthedocs.org/user_builds/pyrolite/checkouts/main/pyrolite/plot/spider.py:276: UserWarning: Attempt to set non-positive ylim on a log-scaled axis will be ignored.
  ax.set_ylim(_ymin, _ymax)
/home/docs/checkouts/readthedocs.org/user_builds/pyrolite/checkouts/main/pyrolite/plot/spider.py:276: UserWarning: Attempt to set non-positive ylim on a log-scaled axis will be ignored.
  ax.set_ylim(_ymin, _ymax)
/home/docs/checkouts/readthedocs.org/user_builds/pyrolite/checkouts/main/pyrolite/plot/spider.py:276: UserWarning: Attempt to set non-positive ylim on a log-scaled axis will be ignored.
  ax.set_ylim(_ymin, _ymax)
/home/docs/checkouts/readthedocs.org/user_builds/pyrolite/checkouts/main/pyrolite/plot/spider.py:276: UserWarning: Attempt to set non-positive ylim on a log-scaled axis will be ignored.
  ax.set_ylim(_ymin, _ymax)
/home/docs/checkouts/readthedocs.org/user_builds/pyrolite/checkouts/main/pyrolite/plot/spider.py:276: UserWarning: Attempt to set non-positive ylim on a log-scaled axis will be ignored.
  ax.set_ylim(_ymin, _ymax)
/home/docs/checkouts/readthedocs.org/user_builds/pyrolite/checkouts/main/pyrolite/plot/spider.py:276: UserWarning: Attempt to set non-positive ylim on a log-scaled axis will be ignored.
  ax.set_ylim(_ymin, _ymax)
/home/docs/checkouts/readthedocs.org/user_builds/pyrolite/checkouts/main/pyrolite/plot/spider.py:276: UserWarning: Attempt to set non-positive ylim on a log-scaled axis will be ignored.
  ax.set_ylim(_ymin, _ymax)
/home/docs/checkouts/readthedocs.org/user_builds/pyrolite/checkouts/main/pyrolite/plot/spider.py:276: UserWarning: Attempt to set non-positive ylim on a log-scaled axis will be ignored.
  ax.set_ylim(_ymin, _ymax)
/home/docs/checkouts/readthedocs.org/user_builds/pyrolite/checkouts/main/pyrolite/plot/spider.py:276: UserWarning: Attempt to set non-positive ylim on a log-scaled axis will be ignored.
  ax.set_ylim(_ymin, _ymax)
/home/docs/checkouts/readthedocs.org/user_builds/pyrolite/checkouts/main/pyrolite/plot/spider.py:276: UserWarning: Attempt to set non-positive ylim on a log-scaled axis will be ignored.
  ax.set_ylim(_ymin, _ymax)
/home/docs/checkouts/readthedocs.org/user_builds/pyrolite/checkouts/main/pyrolite/plot/spider.py:276: UserWarning: Attempt to set non-positive ylim on a log-scaled axis will be ignored.
  ax.set_ylim(_ymin, _ymax)
/home/docs/checkouts/readthedocs.org/user_builds/pyrolite/checkouts/main/pyrolite/plot/spider.py:276: UserWarning: Attempt to set non-positive ylim on a log-scaled axis will be ignored.
  ax.set_ylim(_ymin, _ymax)
/home/docs/checkouts/readthedocs.org/user_builds/pyrolite/checkouts/main/pyrolite/plot/spider.py:276: UserWarning: Attempt to set non-positive ylim on a log-scaled axis will be ignored.
  ax.set_ylim(_ymin, _ymax)
/home/docs/checkouts/readthedocs.org/user_builds/pyrolite/checkouts/main/pyrolite/plot/spider.py:276: UserWarning: Attempt to set non-positive ylim on a log-scaled axis will be ignored.
  ax.set_ylim(_ymin, _ymax)
/home/docs/checkouts/readthedocs.org/user_builds/pyrolite/checkouts/main/pyrolite/plot/spider.py:276: UserWarning: Attempt to set non-positive ylim on a log-scaled axis will be ignored.
  ax.set_ylim(_ymin, _ymax)