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subhacom / test.ipynb
Last active June 9, 2019 16:21
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subhacom / colab_bug.ipynb
Last active June 8, 2019 18:02
Demonstration of a bug where colab misses out some cells created in Jupyter
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subhacom / hh_squid.py
Created October 29, 2018 16:38
Python implementation of Hodgkin and Huxley's squid giant axon model using scipy ode solver.
# hh_squid.py ---
# Author: Subhasis Ray
# Created: Fri Oct 26 10:21:21 2018 (-0400)
# Last-Updated: Mon Oct 29 12:32:49 2018 (-0400)
# By: Subhasis Ray
# Version: $Id$
# Code:
"""A python implementation of Hodgkin-Huxley`s Squid Giant Axon model."""
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subhacom / lzcomplexity.c
Created September 13, 2018 19:14
A small C program to compute Lempel-Ziv complexity of a string
/* lzcomplexity.c ---
* Author: Subhasis Ray
* Created: Thu Sep 13 11:54:21 2018 (-0400)
* Last-Updated: Thu Sep 13 14:01:18 2018 (-0400)
* By: Subhasis Ray
* Version: $Id$
/* This implements the algorithm described by Casper and Schu"ster, 1987, Physical Review A:
"Easily calculable measure for the complexity of spatiotemporal patterns". */
/* Code: */
#include <stdio.h>
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subhacom / vtk_size_color.py
Created August 9, 2018 18:25
Simple script showing how to set size and color of glyphs using different scalar arrays
# vtk_size_color.py ---
# Author: Subhasis Ray
# Created: Thu Aug 9 11:04:16 2018 (-0400)
# Last-Updated: Thu Aug 9 14:24:15 2018 (-0400)
# By: Subhasis Ray
# Version: $Id$
# Code:
"""Test simultaneous radius and color settings in glyph.
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subhacom / line_color_anim.py
Last active July 20, 2018 15:19
Minimal example of spheres and lines animated by changing colors based on scalar value
# line_color_anim.py ---
# Author: Subhasis Ray
# Created: Thu Jul 19 16:58:58 2018 (-0400)
# Last-Updated: Fri Jul 20 11:18:41 2018 (-0400)
# By: Subhasis Ray
# Version: $Id$
# Code:
"""Short example of animating line colors with color transfer function
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subhacom / biomodelsclient.py
Last active November 4, 2015 20:29
This is a Python implementation to query the webservice of biomodels database (https://www.ebi.ac.uk/biomodels-main/) I originally wrote for the MOOSE gui (https://github.com/BhallaLab/moose-gui) back in 2010. This gist is updated to work with Python3 and PyQt4 and provides a client class as well as a graphical widget for downloading models.
# biomodelsclient.py ---
#
# Filename: biomodelsclient.py
# Description:
# Author: Subhasis Ray (original client & widget),
# GV Harsharani (pickled cache).
# Maintainer:
# Created: Tue Mar 2 07:57:39 2010 (+0530)
# Version:
# Last-Updated: Wed Nov 04 15:02:32 2015 (EDT)
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subhacom / cpmd5.sh
Last active September 25, 2023 16:59
rsync and md5sum: Use rsync to copy a directory and then generate a file containing the md5sum of all the files in source directory. Finally do a check of the md5sum of the target.
#!/bin/bash
if [ $# -lt 2 ]; then
echo "Usage: $0 source dest [md5file]"
echo "Copy source directory into dest directory and put md5 sum of the files in source in md5file. "
echo "If no md5 file is unspecified it is created in current directory"
echo
exit 0
fi
source=$1
target=$2
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subhacom / ranksurprise.py
Created December 19, 2012 12:03
Detect bursts in spiketimes using Rank-Surprise method by Boris Gourevitch and Jos J. Eggermont. Although we use the word spike trains specific to Neuroscience, it is essentially a series of event times t0, t1, t2, ... tn and inter-spike-interval (ISI) is the interval between these events (t1-t0, t2-t1, ...). Reference: Gourevitch, B. & Eggermon…
# ranksurprise.py ---
#
# Filename: ranksurprise.py
# Description: Rank-surprise (RS) algorithm for burst identification.
# Author: Subhasis Ray
# Maintainer:
# Created: Thu Dec 13 15:03:05 2012 (+0530)
# Version:
# Last-Updated: Wed Dec 19 17:31:45 2012 (+0530)
# By: subha