Saturday 02/16/13

10:30 A – 8:30P, 10:00P – 11:55P

STORM Analysis

DaoSTORM analysis still running on Fab7-A647 Pc-750
Read write steps from USB connected hard-drive very slow when this analysis is running. (I’m not sure how much slower the analysis goes to have multiple files reading)
Really should upgrade this to eSATA or USB 3.0.
Setting up analysis of original Fab7 405-647 (01-31-13)
rerun z-calibration for orignal Fab7 data
Set up daoSTORM parameters and run on Tuck.
Setting up analysis of Fab7 multicolor data (with SS).
Movies 8-22 sample is outside of TIRF field. Data deleted. Should take more images! Signed up for STORM2 time tonight and tomorrow (Sunday) night.
modifying STORMfinder to use scratchPath (unecessary reading and writing from a disk which is being heavily accessed for other analysis is painfully slow).

BXC_s3_vs_s2_2012_02_16 – loop through all mlists, create images of all dots, compute statistics: 16x16nm pixels occupied by cluster, mean median max number of localizations per pixel bin, total localizations in cluster, total localization density (per spatial units of 16×16 bins).

Starting to explore:

(2 randomly selected examples, may not be at all representative of true data).

Problem with color scaling is that GenGaussianSRImage converts to uint16 by rescaling from 0 to 2^16. This is fine for single Z but is a problem for Z as color.
solution — GenGaussianSRImage should return raw data as a single, this can be rescaled appropriately to max intensity of all pixels. Image of fixed solution: (previously all color scalebars went from 0 to 2^16:

MTD x PSc 2 from 2/1 and 1/28: definitely viable
BUT: MTD x Psc2 from 2/11 still 1 live male, 2 females 100+ embryos NOT viable !?
MAT alpha Tub x Psc2 (F1s): NOT viable!
expanding shRNA lines (need males). Set up new Psc2 x Mat alpha Tub crosses soon
New collection bottles: Ph-p,Ph-d/FM7 , Pc1/TM1, and SCM/TM3
Flipped all emerging F1s from MAT test crosses stored at 29C into new vials to check viability. Should get good confirmation results early next week.
Ph and Scm flies laying strong. Pc not laying well
PM virgin collection