Monthly Archives: November 2013

Thursday 11/14/13

Posted on November 14, 2013 by admin

9:30a – 11:45p Coding / Genomics Fixing fastaread to avoid memory errors Matlab calls char on the list of sequences. If there are short sequences and very long sequences mixed together in the fasta file, this can introduce many gigabytes … Continue reading →

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Protected: project 2

Posted on November 14, 2013 by admin

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Wednesday 11/13/2013

Posted on November 13, 2013 by admin

10:00a – 7:15p Other Reply to BJ with final corrections / proofs Deep sequencing analysis scatterplot correlations on log10 scale Coding Interesting matlab fact: Nested functions have access to the parent workspace. Got CIGAR and MD parser from Jeff to … Continue reading →

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Tuesday 11/12/13

Posted on November 12, 2013 by admin

9:30a – 11:30p Analysis to do: Finish analyzing E10 data! analyze E08 data E01 data, first image looks okay, rest have no obvious dots. STORM movies not too much blinking Presentation to do: Spot analysis Pool all regions analyzed, plot … Continue reading →

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Monday 11/11/13

Posted on November 11, 2013 by admin

8:40a – 1:15a Ph project Get S2 cells for Ajaz Running more simulations to explore appropriate range and parameters for the effect of PhM concentration on clustering. For the moment let’s ignore the unbound populations of molecules. Surprisingly I observe … Continue reading →

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Protected: Lab meeting 11/11/13

Posted on November 11, 2013 by admin

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Sunday 09/10/13

Posted on November 10, 2013 by admin

9:00a – 1:30p, 5:30 – 11:00p Goals Continue analysis of MiSeq Results (in process) Work on modeling figures for Ph Project Finish editing Banff Workshop report and send around for final review prior to submission. (tomorrow?) Double check requirements for … Continue reading →

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Protected: project 2 update

Posted on November 10, 2013 by admin

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Saturday 11/09/13

Posted on November 9, 2013 by admin

8:30a – 7:30p, 8:30p – 11:30p (remotely) Goals Write to Alvaro (done) Reply to Zenklusen (done) Continue analysis of MiSeq Results (in process) write to Jeff to get gene list (done) repeat RT reaction with more enzyme (done) Work on … Continue reading →

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Friday 11/08/13

Posted on November 8, 2013 by admin

10:00a – 11:45p Goals Write to Alvaro — try tomorrow Reply to Zenklusen — try tomorrow Check MiSeq Results in process repeat RT reaction with more enzyme — try tomorrow Project 2 see notes Review writeup Install phase ring and … Continue reading →

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