NetworkX for genotype-phenotype maps.
Genotype-phenotype maps in NetworkX
GenotypePhenotypeMap to a NetworkX Digraph.
GPGraph follows NetworkX syntax. Initialize a graph, add the
genotype-phenotype map object, and draw the graph. This library even
comes with a draw method,
draw_gpgraph, suited for genotype-phenotype graphs.
from gpmap.simulate import MountFujiSimulation from gpgraph import GenotypePhenotypeGraph from gpgraph.pyplot import draw_gpgraph, draw_edges # Simulate a genotype-phenotype map sim = MountFujiSimulation.from_length(4, roughness_width=1) # Turn the genotype-phenotype map into a networkx object G = GenotypePhenotypeGraph(sim) # Draw the graph figure = draw_gpgraph(G, edge_colors = 'gray', node_size=400)
Clone this repo and install with
pip install -e .
Clone this repo and run
setup.py as follows
python setup.py develop --user
This way, if only python scripts are being changed nothing has to be reinstalled.
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