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Proceedings of the 17th Python in Science Conference (SciPy 2018)

Fatih Akici, David Lippa, Dillon Niederhut, M Pacer

July 9 - July 15

Austin, Texas


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Dynamic Social Network Modeling of Diffuse Subcellular Morphologies 1
Andrew Durden, Allyson T Loy, Barbara Reaves, Mojtaba Fazli, Abigail Courtney, Frederick D Quinn, S Chakra Chennubhotla, Shannon P Quinn

Cloudknot: A Python Library to Run your Existing Code on AWS Batch 8
Adam Richie-Halford, Ariel Rokem

Equity, Scalability, and Sustainability of Data Science Infrastructure 15
Anthony Suen, Laura Norén, Alan Liang, Andrea Tu

Composable Multi-Threading and Multi-Processing for Numeric Libraries 18
Anton Malakhov, David Liu, Anton Gorshkov, Terry Wilmarth

The Econ-ARK and HARK: Open Source Tools for Computational Economics 25
Christopher D. Carroll, Alexander M. Kaufman, Jacqueline L. Kazil, Nathan M. Palmer, Matthew N. White

Developing a Start-to-Finish Pipeline for Accelerometer-Based Activity Recognition Using Long Short-Term Memory Recurrent Neural Networks 31
Christian McDaniel, Shannon Quinn

Practical Applications of Astropy 41
David Shupe, Frank Masci, Russ Laher, Ben Rusholme, Lee Armus

EarthSim: Flexible Environmental Simulation Workflows Entirely Within Jupyter Notebooks 48
Dharhas Pothina, Philipp J. F. Rudiger, James A Bednar, Scott Christensen, Kevin Winters, Kimberly Pevey, Christopher E. Ball, Gregory Brener

Safe handling instructions for missing data 56
Dillon Niederhut

Text and data mining scientific articles with allofplos 61
Elizabeth Seiver, M Pacer, Sebastian Bassi

Sparse: A more modern sparse array library 65
Hameer Abbasi

Bringing ipywidgets Support to 69
Jon Mease

WrightSim: Using PyCUDA to Simulate Multidimensional Spectra 77
Kyle F Sunden, Blaise J Thompson, John C Wright

Exploring the Extended Kalman Filter for GPS Positioning Using Simulated User and Satellite Track Data 84
Mark Wickert, Chiranth Siddappa

Real-Time Digital Signal Processing Using pyaudio\_helper and the ipywidgets 91
Mark Wickert

Organic Molecules in Space: Insights from the NASA Ames Molecular Database in the era of the James Webb Space Telescope 99
Matthew J. Shannon, Christiaan Boersma

Harnessing the Power of Scientific Python to Investigate Biogeochemistry and Metaproteomes of the Central Pacific Ocean 106
Noelle A. Held, Jaclyn K. Saunders, Joe Futrelle, Mak A. Saito

Binder 2.0 - Reproducible, interactive, sharable environments for science at scale 113
Project Jupyter, Matthias Bussonnier, Jessica Forde, Jeremy Freeman, Brian Granger, Tim Head, Chris Holdgraf, Kyle Kelley, Gladys Nalvarte, Andrew Osheroff, M Pacer, Yuvi Panda, Fernando Perez, Benjamin Ragan-Kelley, Carol Willing

Spatio-temporal analysis of socioeconomic neighborhoods: The Open Source Longitudinal Neighborhood Analysis Package (OSLNAP) 121
Sergio Rey, Elijah Knaap, Su Han, Levi Wolf, Wei Kang

Design and Implementation of pyPRISM: A Polymer Liquid-State Theory Framework 129
Tyler B. Martin, Thomas E. Gartner III, Ronald L. Jones, Chad R. Snyder, Arthi Jayaraman

A Bayesian’s journey to a better research workflow 137
Konstantinos Vamvourellis, Marianne Corvellec

Scalable Feature Extraction with Aerial and Satellite Imagery 145
Virginia Ng, Daniel Hofmann

signac: A Python framework for data and workflow management 152
Vyas Ramasubramani, Carl S. Adorf, Paul M. Dodd, Bradley D. Dice, Sharon C. Glotzer

Yaksh: Facilitating Learning by Doing 160
Prabhu Ramachandran, Prathamesh Salunke, Ankit Javalkar, Aditya Palaparthy, Mahesh Gudi, Hardik Ghaghada