SciPy 2015 Talk & Poster List

The SciPy organizing committee is in awe of the work the SciPy community is doing and we greatly appreciate everyone who submitted a topic for this year's conference. If your submission wasn't able to be slated into the limited number of main conference talk sessions or poster slots, we encourage you to take advantage of the lightning talk and Birds of a Feather (BoF) sessions to share your work. See this page for the talk and poster schedule.

Are you a talk or poster presenter? See this page for information for presenters.

We hope to see you at SciPy in July!

Accepted Talks

(scroll down for accepted posters)

Analyzing Genomic Data with PyEnsembl and Varcode [More Info] Alex Rubinsteyn, Mount Sinai School of Medicine Tim O'Donnell, Mount Sinai School of Medicine
Big Data in Practice: The Example of Nilearn for Mining Brain Imaging Data [More Info] Loïc Estève, Inria
ETE: A Python Programming Toolkit for the Analysis and Visualization of Trees [More Info] Jaime Huerta-Cepas, EMBL
Python as a First Programming Language for Biomedical Scientists [More Info] Jeannie Irwin, University of Pittsburgh
Python Derived Imaging Biomarkers of Dementia [More Info] Ross Mitchell, Professor of Radiology, Mayo Clinic College of Medicine, Mayo Clinic Arizona
Qiita: Report of Progress Towards an Open Access Microbiome Data Analysis and Visualization Platform [More Info] Adam Robbins-Pianka, University of Colorado, Boulder Yoshiki Vazquez-Baeza, University of California, San Diego
Rapid Accurate and Simple Segmentation of Objects in Medical Images [More Info] Ross Mitchell, Professor of Radiology, Mayo Clinic College of Medicine, Mayo Clinic Arizona
scikit-bio: A Bioinformatics Library for Data Scientists, Students, and Developers [More Info] Jai Ram Rideout, Northern Arizona University Evan Bolyen, Northern Arizona University
Statistical Learning of Human Brain Structure in DIPY [More Info] Ariel Rokem, The University of Washington eScience Institute Franco Pestilli, Indiana University Bagrat Amirbekian, University of California, San Francisco Stefan van der Walt, University of California, Berkeley Brian Wandell, Stanford University Eleftherios Garyfallidis, University of Sherbrooke
The Biopython Project: Freely Available Python Tools for Computational Molecular Biology and Bioinformatics [More Info] Tiago Antao
Visualizing Physiological Signals in Real Time [More Info] Sebastian Sepulveda, Universidad de Valaparaiso
Astropy in 2015 [More Info] Erik Tollerud, Hubble Fellow, Astropy/Yale University
Automated Image Quality Monitoring with IQMon [More Info] Josh Walawender, Instrument Astronomer, Subaru Telescope
PyNeb: Nebular Analysis Tools for Astrophysics [More Info] Richard Shaw, National Optical Astronomy Observatory
Python Tools for Space Mission Data Analyses [More Info] Michael Aye, LASP
The James Webb Space Telescope Data Calibration Pipeline [More Info] Howard Bushouse, Space Telescope Science Institute
Who Needs Standard Stars Anyway? Telluric Model Fitting with TelFit [More Info] Kevin Gullikson, University of Texas
Widgets and Astropy: Accomplishing Productive Research with Undergraduates [More Info] Matthew Craig, Minnesota State University Moorhead
Conference Talks
Deep Learning Versus Segmentation and ML to Classify Biological Images [More Info] Cedric St-Jean, Recursion Pharmaceuticals
Deep Learning for Quantity-Structure Activity Relationships [More Info] Rich Lewis, University of Cambridge

Data Science
Deep Learning: Tips from the Road [More Info] Kyle Kastner, Graduate Student, Université de Montréal
Perceptual Colormaps in matplotlib with an Application in Oceanography [More Info] Kristen Thyng, Assistant Research Scientist, Texas A&M University
Deep Learning for Quantity-Structure Activity Relationships [More Info] Rich Lewis, University of Cambridge
pgmpy: Probabilistic Graphical Models using Python [More Info] Ankur Ankan Abinash Panda
PyStruct - Structured Prediction in Python [More Info] Andreas Mueller, New York University Center for Data Science
Blaze + Odo [More Info] Phillip Cloud, Continuum Analytics
Building a Cloud-based Data Science Platform with Python [More Info] Stephen Hoover, Data Scientist, Civis Analytics
Deploying Python Machine Learning Models in Production [More Info] Krishna Sridhar, Dato
Examining Malware with Python [More Info] Phil Roth, Endgame
Python in Data Science Research and Education [More Info] Randy Paffenroth, Worcester Polytechnic Institute
State of the Library: matplotlib [More Info] Thomas Caswell, Brookhaven National Laboratory Benjamin Root
Structural Cohesion: Visualization and Heuristics for Fast Computation with NetworkX and matplotlib [More Info] Jordi Torrents, NetworkX
The Polyglot Beaker Notebook [More Info] Scott Draves, Two Sigma Open Source
Welcome to the Algo Wars: Leveraging Design Thinking for Building Scalable Enterprise Intelligent Systems using Python [More Info] Zubin Dowlaty, Mu Sigma Subir Mansukhani, Mu Sigma Bharat Upadrasta, Mu Sigma
xray: N-D Labeled Arrays and Datasets [More Info] Stephan Hoyer, The Climate Corporation
ASDF, a New Scientific Data Format [More Info] Perry Greenfield, Space Telescope Science Institute Michael Droettboom, Space Telescope Science Institute Erik Bray, Space Telescope Science Institute
Causal Bayesian NetworkX [More Info] Michael Pacer, Graduate Student, University of California, Berkeley
RESTful HDF [More Info] John Readey, HDF Group
UDL: Unified Interface for Deep Learning [More Info] Haitham Elmarakeby, Virginia Tech University
Wrapping C and C++ Libraries with CastXML [More Info] Brad King, Kitware Bill Hoffman, Kitware Matthew McCormick, Kitware Michka Popoff

Engineering
An Open-Source Data Archive for Expert-Annotated Dermoscopic Images [More Info] Brian Helba, Kitware Inc
Basic Sound Processing in Python [More Info] Speaker: Allen Downey, Professor of Computer Science, Olin College
Optimal Control and Parameter Identification of Dynamcal Systems with Direct Collocation using SymPy [More Info] Jason Moore, Lead Developer, PyDy
pycalphad: Computational Thermodynamics in Python [More Info] Richard Otis, Pennsylvania State University
PyRK: A Python Package for Nuclear Reactor Kinetics [More Info] Kathryn Huff, Fellow, University of California, Berkeley
Signal Processing and Communications: Teaching and Research Using IPython Notebook [More Info] Mark Wickert, University of Colorado
The Need for New Tools for Materials Discovery [More Info] Christopher Wilmer, University of Pittsburgh

Finance / Social Sciences
Congress & New Media: A Data Driven Study of Congressional Public Relations [More Info] Brian Smith, Ball State University - Deptartment of Political Science
Exploring Open Source Community Dynamics with BigBang [More Info] Sebastian Benthall, Berkeley School of Information
Scientific Python using Mobile OS [More Info] Roberto Colistete Junior, UFES - Federal University of Espirito Santo (Brazil)
Will Millennials Ever Get Married? Survival Analysis and Marriage Data [More Info] Allen Downey, Olin College

General
Statistical Thinking for Data Science [More Info] Chris Fonnesbeck, Assistant Professor, Department of Biostatistics, Vanderbilt University School of Medicine
A Cloud Service to Record Simulation Metadata [More Info] Yannick Congo, NIST/Blaise Pascal University Jonathan Guyer, NIST
Dask - Out-of-core NumPy/Pandas through Task Scheduling [More Info] James Crist, Graduate Student, University of Minnesota
Dexy and Docker for Scientific Reproducibility [More Info] Ana Nelson, Cosmify, Dexy
DistArray: Distributed Array Computing for Python [More Info] Robert Grant, Scientific Software Developer, Enthought Kurt Smith, Scientific Software Developer, Enthought
Jupyter / Ipython, State Of Multiuser And Real-Time Collaboration [More Info] Matthias Bussonnier, UC Berkeley BIDS / IPython / Jupyter Kester Tong, Google
Librosa: Audio and Music Signal Analysis in Python [More Info] Brian McFee, New York University
Teaching with IPython/Jupyter Notebooks and JupyterHub [More Info] Jessica Hamrick, University of California, Berkeley Min Ragan-Kelley, IPython Kyle Kelley, Rackspace
HDF5 is Eating the World [More Info] Andrew Collette, University of Colorado, Boulder
PyEDA: Data Structures and Algorithms for Electronic Design Automation [More Info] Chris Drake, Engineer, Google
Scientific Computing for Undergraduates: Getting Students into the Kitchen [More Info] Amelia McBee Henriksen, Brigham Young University
What the FORTRAN is ** Doing in Python? [More Info] En Zyme, Proteasome Digest
A Framework for Analyzing GADGET Simulation Data in Pandas [More Info] Jacob Hummel, University of Texas, Austin
Accelerating Python with the Numba JIT Compiler [More Info] Stanley Seibert, Continuum Analytics
Agent-Based Modeling in Python with Mesa [More Info] Jackie Kazil David Masad, George Mason University
Circumventing the Linker: Using SciPy's BLAS and LAPACK within Cython [More Info] Ian Henriksen, Brigham Young University
Docker for Improved Reproducibility of Scientific Python Analyses [More Info] Matthew McCormick, Kitware
From 1-Day Release to 1-Min Release (or How to Recover Time with Automation) [More Info] Damian Avila, Continuum Analytics
Keep on Releasin': Continuous Delivery for Open Source [More Info] Philip Elson, Met Office
klepto: Unified Persistent Storage to Memory, Database, or Disk [More Info] Michael McKerns, UQ Foundation
So How ARE Scientists Using Python on Supercomputers? [More Info] Michael Milligan, Minnesota Supercomputing Institute, University of Minnesota
Towards a Better Documentation System for Scientific Python [More Info] Carlos Cordoba, Continuum Analytics
Typing Arrays with DyND [More Info] Mark Wiebe, Thinkbox Software

Geographic Info Systems (GIS)
Analysis and Visualization of Imaging Experiments with IPython, sklearn and bokeh [More Info] Blake Borgeson, Recursion Pharmaceuticals
To Be Announced
Connecting Circuits for Asynchronous Data Workflows [More Info] Carson Farmer, University of Colorado, Boulder
Eigenvector Spatial Filtering using NumPy and ArcGIS [More Info] Bryan Chastain, University of Texas, Dallas
Spatial Income Inequality Dynamics in PySAL [More Info] Wei Kang, GeoDa Center for Geospatial Analysis & Computation Sergio Rey, GeoDa Center for Geospatial Analysis and Computation

Geophysics
Geodynamic Simulations in HPC with Python [More Info] Nicola Creati, OGS Roberto Vidmar, OGS Paolo Sterzai, OGS
Global Hydrology Analysis Using Python [More Info] Mattheus Ueckermann, Creare
Practical Integration of Processing, Inversion and Visualization of Magnetotelluric Geophysical Data [More Info] Gudni Rosenkjaer, University of British Columbia
Striplog: Wrangling 1D Subsurface Data [More Info] Matt Hall, Agile Geoscience
Touch your Data! Color 3D Printing with Python [More Info] Joe Kington, Chevron
Using Python to Span the Gap between Education, Research, and Industry Applications in Geophysics [More Info] Lindsey Heagy, University of British Columbia: Geophysical Inversion Facility

Oceanography
A Distributed, Standards-Based Framework for Searching, Accessing, Analyzing and Visualizing Met-Ocean Data: Application to Hurricane Sandy [More Info] Richard Signell, USGS Filipe Fernandes, SECOORA Kyle Wilcox, Axiom Data Science Andrew Yan, USGS
Characterizing the Seafloor with Python as a Toolbox [More Info] Johanna Hansen, Woods Hole Oceanographic Institution
Exploring Open Access Weather Radar with the Python ARM Toolkit [More Info] Jonathan Helmus, Argonne National Laboratory Scott Collis, Argonne National Laboratory
From Zero to Hero in Two Years, Open Collaborative Radar Software and the Secret to our Success [More Info] Scott Collis, Argonne National Laboratory Nick Guy, University of Wyoming Anderson Gama, SIMEPAR - Sistema Meteorológico do Paraná Cesar Beneti, SIMEPAR - Sistema Meteorológico do Paraná Stephen Nesbitt, University of Illinois Scott Giangrande, Brookhaven National Laboratory Maik Hiestermann, University of Potsdam Kai Muehlbauer, University of Bonn
PySPLIT: a Package for the Generation, Analysis, and Visualization of HYSPLIT Air Parcel Trajectories [More Info] Mellissa Cross
Python in Tidal Energy: Three Tools Used in a Collaboration on Array Optimization [More Info] Kristen Thyng, Assistant Research Scientist, Texas A&M University

Visualization
A Better Default Colormap for Matplotlib [More Info] Stéfan van der Walt, University of California, Berkeley Nathaniel Smith, University of California, Berkeley
HoloViews: Building Complex Visualizations Easily for Reproducible Science [More Info] Jean-Luc R. Stevens, University of Edinburgh Philipp Rudiger, University of Edinburgh James A. Bednar, University of Edinburgh
Scientific Data Analysis and Visualization with VTK and ParaView [More Info] Cory Quammen, Kitware
Story Time with Bokeh [More Info] Bryan Van de Ven, Continuum Analytics
TrendVis: An Elegant Interface for Dense, Sparkline-Like, Quantitative Visualizations of Multiple Series Using Matplotlib [More Info] Mellissa Cross
VisPy: Harnessing The GPU For Fast, High-Level Visualization [More Info] Luke Campagnola, University of North Carolina, Chapel Hill

Accepted Posters

Posters
A Bioinformatic Pipeline to Search for Genetic Variants of Wood Frog Environmental Response Genes [More Info] Jordan Brooker, Research Technician, Vassar College
A Web-based Visualization Platform for Microbiome Metaproteomics [More Info] Sandip Chatterjee, The Scripps Research Institute
Comparing and Evaluating Clustering Methods for Protein Simulations [More Info] Jan H. Meinke, Forschungszentrum Juelich
Computational Astrophysical Hydrodynamics for Students [More Info] Michael Zingale, Stony Brook University
Detecting Carcinogenic Somatic Mutations Using Scikit-learn [More Info] Chak-Pong Chung
Developing Robust and Maintainable PyQt GUI Applications for Neutron Scattering at a Large DOE User Facility [More Info] Wenduo Zhou, Oak Ridge National Laboratory Ke An, Oak Ridge National Laboratory Jean-Christophe Bilheux, Oak Ridge National Laboratory Stephen D. Miller, Oak Ridge National Laboratory Peter F. Peterson, Oak Ridge National Laboratory
Development of Large Image Analysis Workflows in the Context of “SlideAtlas” [More Info] Dhanannjay "Djay" Deo, Kitware Inc Brian Helba, Kitware Inc
Epithelial Tissue Simulation and with Initial Conditions Taken From In Vivo Images [More Info] Melvyn Drag, Ohio State University
ESPResSo++: A Parallel Python Module for Soft Matter Simulations [More Info] Horacio Vargas Guzman, Max Planck Institut for Polymer Research Torsten Stuehn, Max Planck Institute for Polymer Research
MetOceanTrack: A Desktop GUI to Simulate The Dispersal of Invasive Species in Coastal and Continental Shelf Regions [More Info] Andre Lobato, Metocean Solutions LTD.
Patient Signals - Building and Deploying Predictive Apps in Healthcare [More Info] Corey Chivers, University of Pennsylvania Health System
Perceptual Colormaps in matplotlib with an Application in Oceanography [More Info] Kristen Thyng, Assistant Research Scientist, Texas A&M University
Performance of PyCUDA (Python in GPU High Performance Computing) [More Info] Roberto Colistete Junior, UFES - Federal University of Espirito Santo (Brazil)
Python Tool to Load, Process, and Plot Conductive Temperature Depth (CTD) data [More Info] Filipe Fernandes, SECOORA
Reassortment Primes Influenza for Ecotype Switches [More Info] Eric Ma, Massachusetts Institute of Technology
Relation: The Missing Container [More Info] James Larkin, Noblis Scott James, Noblis
Risk Analysis of Privacy Invasion in Social Network using Python with SciPy [More Info] Jun-Bum Park, UST(Korea University of Science and Technology) & ETRI(Electronics and Telecommunications Research Institute)
rsfmodel - A Frictional Modeling Tool for Fault and Laboratory Data Analysis [More Info] John Leeman, Ph.D. Candidate, Penn State University Ryan May, UCAR/Unidata
The Use of Python in the Large-Scale Analysis and Identification of Potential Antimicrobial Peptides [More Info] Shaylyn Scott, George Mason University
TLS Benchmarking with IPython [More Info] Christopher Niemira, AOL
Toolset and Workflow for Verification, Validation and Uncertainty Quantification in Large-scale Engineering Applications [More Info] Damon McDougall, UT Austin
Topological Data Analysis using Python [More Info] Dan Dickinson
Using Python and Jupyter Notebooks for a Biomedical Imaging Phenotyping Service [More Info] Brian Chapman, University of Utah John Roberts, University of Utah Stuart Schulthies, University of Utah
Using Python to Manage 800,000 WAAS Data Points per Second [More Info] Benjamin Potter, Federal Aviation Administration
Using Self Organizing Maps to Visualize and Cluster High Dimensional Data [More Info] Richard Xie, Endgame
Working with Matplotlib via PyQt/Qt Designer [More Info] Jean Bilheux, Oak Ridge National Laboratory Steve Miller, Oak Ridge National Laboratory Wenduo Zhou, Oak Ridge National Laboratory
An MR Spectroscopy Database Query and Visualization Engine as a Clinical Diagnostic Tool [More Info] Justin Foong, The Hospital for Sick Children
Coupling Geophysical Terminology and Package Development [More Info] Rowan Cockett, The University of British Columbia
Creating a Real-Time Recommendation Engine using Modified K-Means Clustering and Remote Sensing Signature Matching Algorithms [More Info] David Lippa, Principal Software Engineer, RealMassive Jason Vertrees, Chief Technology Officer, RealMassive
Efficiently Exploring the Universe of Porous Media: Generating, Simulating, and Mutating Hypothetical Pseudo-materials [More Info] Alec Kaija
Fast Visualization and User Interfaces with PyQtGraph [More Info] Luke Campagnola, UNC Chapel Hill
How Would You Like Your "Tab" to Be? [More Info] Hyungtae Kim, University of California, Irvine
Jupyter Notebook + SciPy = Rapid Fire Data Science [More Info] Jonathan Whitmore, Silicon Valley Data Science
MDSynthesis: a Python Package Enabling Data-driven Molecular Dynamics Research [More Info] Speaker: David Dotson, Arizona State University
OOF 3D: Modular Software Design in the Face of Major Feature Changes [More Info] Andrew Reid, NIST
Psi4: Open-Source Quantum Chemistry [More Info] Lori Burns, Georgia Tech Chemistry
PyCO2...because we need to know. [More Info] Juliana Leonel, Universidade Federal da Bahia Filipe Fernandes
Python Interfaces in Mantid [More Info] Steve Miller, Oak Ridge National Laboratory
PyUgrid: Handling NetCDF for Unstructured Grids [More Info] Chris Calloway, UNC RENCI
Scientific GUI Application Development Using Qt Designer and PyQt [More Info] Steve Miller, Oak Ridge National Laboratory Jean Bilheux, Oak Ridge National Laboratory Wenduo Zhou, Oak Ridge National Laboratory
SciPy and Real-time Big Data for Site Optimization [More Info] Winnie Cheng, Chief Data Scientist, Bankrate
Testing for serial correlation and non-stationarity of long time series after ARIMA modeling with SciPy and Statsmodels [More Info] Margaret Mahan