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@nickhowston
nickhowston / GPR_association_parsing_sbml.py
Created October 27, 2020 09:37
this file contains methods built for processing GeneProductAssociations from SBML model
"""
this code is an example of a parsing method to extract GeneProductAssociations from SBML file
support version 2 of SBML level 3 Flux Balance Constraints(“fbc”) package
with the aid of Libsbml library
"""
from itertools import chain, combinations
import libsbml
import os
@jsoma
jsoma / README.md
Last active October 11, 2024 17:38
Installing R that works in Jupyter without the 1997 American adventure horror thriller film Anaconda

Installing R in Jupyter notebooks without Anaconda

You need to already have Jupyter installed! If you don't have Python+Jupyter set up, you could use Python Wrangler or you can honestly just go install Anaconda to get started more quickly.

Download R

You can find it at https://cloud.r-project.org. It’s hard to figure out where exactly to go, so here are direct links that might be out of date:

@JoaoRodrigues
JoaoRodrigues / seq_align.py
Last active October 3, 2024 12:04
Pairwise Sequence Alignment with Biopython
#!/usr/bin/env python
from __future__ import print_function, division
from operator import itemgetter
import os
import sys
import tempfile
import warnings