In [1]:

import sys
import time

import hbp_knowledge
import pybel
import pybel_jupyter
from pybel.struct import remove_pathologies

In [2]:

print(sys.version)

3.7.2 (default, Jan 13 2019, 12:50:15) 
[Clang 10.0.0 (clang-1000.11.45.5)]

In [3]:

print(time.asctime())

Thu Feb 21 16:33:08 2019

In [4]:

print(f'PyBEL Version: {pybel.get_version()}')
print(f'PyBEL-Jupyter Version: {pybel_jupyter.get_version()}')
print(f'HBP Knowledge Version: {hbp_knowledge.VERSION}')

PyBEL Version: 0.13.2-dev
PyBEL-Jupyter Version: 0.2.1-dev
HBP Knowledge Version: 0.0.3

In [5]:

graphs = hbp_knowledge.repository.get_graphs()

In [6]:

proteostasis_graphs = {
    path: graph
    for path, graph in graphs.items()
    if 'proteostasis/' in path
}       

In [7]:

proteostasis_graph = pybel.union(proteostasis_graphs.values())
proteostasis_graph.name = 'Proteostasis Subgraph'
proteostasis_graph.summarize()

Proteostasis Subgraph v1.0.0
Number of Nodes: 652
Number of Edges: 1312
Number of Citations: 5
Number of Authors: 27
Network Density: 3.09E-03
Number of Components: 10
Number of Warnings: 0

In [8]:

remove_pathologies(proteostasis_graph)

In [9]:

pybel_jupyter.to_jupyter(proteostasis_graph)

Out[9]: