Category Archives: Scientific computing

Scientific computing and related issues.

ffmpeg

Posted on 15/04/2021 by Chaitanya

Loads of pain converting simulation output (ppm and TIF) time series into a movie format that a journal likes has led me to start this page. Heres a list of standard ffmpeg (Mac OSX 10.12.3, Terminal) tools used on Terminal … Continue reading →

Posted in Blog, Movies, Scientific computing, ffmpeg, scientific_writing | Tagged , , , , | Leave a comment

Latex: Better Scientific Documentation

Posted on 08/05/2018 by Chaitanya

Bibtex Otherwise my favourite means of maintaining bibliographies. A small list of useful bibstyle files that I needed to modify Journal Citation type Reference type .bst file Proceedings of the Indian National Science Academy (PINSA) (Athale and Chaudhari 2010) For … Continue reading →

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By Jupyter

Posted on 19/09/2017 by Chaitanya

First steps in installing Jupyter on my Mac OSX 10.12.6 Sierra Getting the Xcode command line tools Install MacPorts https://www.macports.org Install Python 3.5 >>sudo port install python35 Install PIP from their site using a curl script to get the most updated … Continue reading →

Posted in Blog, Scientific computing, Scripting, Uncategorized, scientific_writing | Leave a comment

Mac for scientific computing

Posted on 11/12/2016 by Chaitanya

Some VERY USEFUL programming tips from Jim Germain, U-Utah. Particularly useful for bare-bones scientific coding. Some steps in installing MAC PORTs on a MAC BOOK PRO (OSX 10.12.1) Sierra or how to turbocharge your Mac (terminal-ly speaking): 1. Ensure your … Continue reading →

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Post-publication review and PLOS’ experiment with the Synthetic Biology Collection

Posted on 28/10/2016 by Chaitanya

The iGEM 2015 synthetic biology contest was an important one for us. It marked our first attempt at putting together a project from IISER Pune. But beyond the novelty for us, many things were different this time around (#igem2015). First … Continue reading →

Posted in Bacterial cell division, Bacterial continuous culture, Blog, Microscopy, Novel diagnostics, Research, Scientific computing, Synthetic biology, iGEM, iGEM, scientific_writing | Leave a comment

Google scripting

Posted on 21/10/2013 by Chaitanya

List of spreadsheet formulae on google-drive

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Survival VI (visual editor)

Posted on 27/09/2012 by Chaitanya

A simple set of commands you MUST know to use VI (visual editor), the editor that comes bundled with most UNIX/Linux flavoured systems. Basically it has 2 modes- command and edit. Usually you will want to edit something. So you … Continue reading →

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New Bibliography Formats in Mendeley

Posted on 05/06/2011 by Chaitanya

Modifying Mendeley Using mendeley the citation manager tool, I needed to expand the limited formats available. To create your own citation style: 1) Citation Style Language (CSL) file with the right specifications. This is a form of XML. Use a … Continue reading →

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