subhacom’s gists

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."""

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>

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.

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

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)

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

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