Tag Archives: polymer

Thursday 08/21/14

Posted on August 21, 2014 by admin

10:00 am – 10:00 pm Multicolor analysis Chromewarps This code is still not too robust. A few mismatched outliers constrain and skew the quality of the warp map. It also is harder when beads from a single field are very … Continue reading →

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Friday 06/20/14

Posted on June 20, 2014 by admin

10:00 am – 11:55 pm Simulations simulations with more nodes (1 every 300 bp) of blue regions don’t ‘work’, simulation time not long enough for distributions to converge. too many nodes such that larger regions never experience bonding interactions. Maybe … Continue reading →

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Thursday 06/19/14

Posted on June 19, 2014 by admin

10:00 am – 8:15 pm Working on Python OpenMM simulations goal, attempt to execute some of Mirny’s example code. Attempting to run demos e.g. scaffoldExample.py complains about notfinding joblib. installed this, required instlaling this complains about not finding mirnylib, which … Continue reading →

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Monday 11/25/13

Posted on November 25, 2013 by admin

9:10a – 11:45p Meetings Lab Meeting: private notes Journal Club: notes Mentoring Meeting Bogdan will explore length dependence in Blue domains BXC ~ 1900 nucleosomes — feasible scale for simulation Polymer simulations Bogdan attempting to get GPU accelerated openMM working … Continue reading →

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