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Paul Macklin
Works at University of Southern California
Attended University of California, Irvine
Lives in Pasadena, CA USA
202 followers|160,404 views
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Paul Macklin

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@MathCancer D(x,y,z) would massively increase memory cost, but otherwise, should be just as fast. A couple months of work for me. Paul Macklin · Aug 18. Paul Macklin @MathCancer. @MathCancer Aniosotropic diffusion (diffusion tensor) would be a diagonal tensor for the forseeable future.
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Paul Macklin

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Please take my ‪#‎BioFVM‬ poll to prioritize new features.
@MathCancer D(x,y,z) would massively increase memory cost, but otherwise, should be just as fast. A couple months of work for me. Paul Macklin · 6m6 minutes ago. Paul Macklin @MathCancer. @MathCancer Aniosotropic diffusion (diffusion tensor) would be a diagonal tensor for the forseeable future.
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Paul Macklin

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I've been working to update my YouTube channel today. Come check it out!

https://www.youtube.com/c/PaulMacklin_MathCancer
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As of now, I'm moving all MathCancer blogging to a @WordPress-powered blog at http://MathCancer.org/blog

read: http://www.mathcancer.org/blog/moving-the-blog-to-mathcancer-org/
Hi, everyone! Blogspot has been a great platform for me, but in the end, editing posts with source code and mathematics has been too much of a headache in the neglected blogspot and google UIs. Elsewhere in the universe, WordPress has developed and encouraged a great ecosystem of plugins that ...
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BioFVM 1.1.4 is released! Main focus is compatibility updates for PhysiCell.

BioFVM is a cross-platform, open source 3D diffusion solver written for biological and clinical problems. It has been optimized for desktop workstations and single compute nodes.

Project website: http://BioFVM.MathCancer.org
Download: http://BioFVM.SourceForge.net
Method Paper: http://dx.doi.org/10.1093/bioinformatics/btv730

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A nice article on mathematical modeling in biology, profiling +James Glazier , +Kristin Swanson and my lab.

Go go mighty modelers! :-)
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Took my 8yo daughter out for our first training run since our surgeries (strabismus surgery for my daughter, cochlear implant for me). Was great to be out again!

We'd appreciate anything you can spare to sponsor our upcoming cancer 5K!
Please help us run to support the Dragon Master Foundation's important work in pediatric brain cancer. This work supports a fantastic project to share research data among many scientists and institutions, so we can make faster progress in beating cancer.
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SageMath's new 7.3 release changelog http://www.sagemath.org/changelogs/sage-7.3.txt
Sage 7.3 was released on 4 August 2016. It is available in source and binary form from: * http://www.sagemath.org/download.html Sage (http://www.sagemath.org/) is developed by volunteers and combines over 90 open source packages. For instructions about installing Sage, ...
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OK, I've fixed all the formatting on the #BioFVM tutorials on the new blog. Now grouped together here: http://www.MathCancer.org/blog/biofvm-tutorials/
BioFVM Tutorials. We have written a series of tutorials for new users to BioFVM, an open source 3-D (and 2-D) diffusion solver for C++ (Ghaffarizadeh et al., 2016). They are there to walk users through various aspects of BioFVM, such as setting up g++ and writing a sample project.
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New blog post!

How to use BioFVM to build a new cellular automaton model. Here, we test it out on a simulation of oxygen-dependent 3-D tumor growth, and switch on a therapy after 3 weeks.

Try it out in your own simulation codes!.

http://www.mathcancer.org/blog/building-a-cellular-automaton-model-using-biofvm/
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Paul Macklin

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Moving the blog to MathCancer.org
Hi, everyone! Blogspot has been a great platform for me, but in the end, editing posts with source code and mathematics has been too much of a headache in the neglected blogspot and google UIs. Elsewhere in the universe, WordPress has developed and encourag...
Figure: An early test of our new 3-D agent-based cell model, growing from 10 to 80000 agents in about 25 days (24-threaded simulation required about 5 hours). Rendered in 3D using POVRAY (with a cutaway view). [Read more ...] ...
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BioFVM 1.1.3 is released! BioFVM is an open source, cross-platform C++ code to simulate 3D diffusion in biological problems.

Version 1.1.3 fixes bugs in Dirichlet nodes, which allow you to specify solution values in any voxel.

Download: http://BioFVM.MathCancer.org
Method paper: http://bioinformatics.oxfordjournals.org/content/32/8/1256.full 
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Story
Tagline
Biomathematician - patient-specific cancer modeling
Education
  • University of California, Irvine
    Ph.D. Mathematics, 2003 - 2007
  • University of Minnesota, Twin Cities
    M.S. Mathematics, 2000 - 2003
  • University of Nebraska–Lincoln
    B.A. Mathematics and German, 1995 - 1999
Basic Information
Gender
Male
Relationship
Married
Work
Occupation
Biomathematician
Employment
  • University of Southern California
    Assistant Professor of Research Medicine, 2011 - present
  • University of Dundee
    Lecturer (permanent staff), 2010 - 2011
  • University of Texas Health Science Center, Houston
    Assistant Professor, 2007 - 2010
Places
Map of the places this user has livedMap of the places this user has livedMap of the places this user has lived
Currently
Pasadena, CA USA
Previously
Fremont, NE USA - Lincoln, NE USA - Minneapolis, MN USA - Irvine, CA USA - Houston, TX USA - Berlin, Germany - Hannover, Germany - Dundee, United Kingdom