A lightweight python library for working with trees and biological sequence collections
Project description
picea
Sprucing up bioinformatics analysis
pip install picea
picea has datastructures and methods to perform common bioinformatics tasks. Currently sequences, sequence annotations, trees, and ontologies are supported.
Example:
from picea import Tree, treeplot
import matplotlib.pyplot as plt
newick = '(((a,b),(c,d)),e)'
tree = Tree.from_newick(newick)
fig, (ax1, ax2) = plt.subplots(ncols = 2, figsize = (10, 4))
#left-to-right layout with direct links
treeplot(tree, style='rectangular', ltr=True, ax=ax1)
#right-to-left layout with square links
treeplot(tree, style='square', ltr=False, ax=ax2)
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