06.11.12: Version 0.937 released
Corrected the signal integration procedure: function aip.cpp replaced with
aip2.cpp, the previous one returned an error on a very small fraction of
Updated the display in MicrobeTracker to display cell width and the average
values for a selected group of cells.
Updated logvalley function to
introduce minimum LoG value
parameter) and cross detection between LoG and Valley
Updated cell division function to use the exact procedure instead of an
Minor updates in peakfinder,
05.01.12: Version 0.936 released
04.10.12: Version 0.935 released
Added interpolated outline regime in algorithm 1 (with
Changed the edge/valley detection
routines (removed "edgevalley" and replaced it with "logvalley" and "edgeforce" functions).
Added possibility to not split (and discard) cells near the boundary (with
Fixed a bug in getting signal for algorithm 1, which used to occasionally
lead to negative signal.
Fixed a bug in joinspots, now there is
a way to output data in microns rather than pixels.
Fixed a bug in SpotFinderZ, now the
figure does not shift or disappear for images larger than the screen.
Fixed small bugs in MicrobeTracker and
peakfinder which caused occasional
Fixed a bugs which used to cause histogram-producing tools to display NaN
for the mean value.
02.17.12: Version 0.934 released
Fixed a bug in SpotFinderF.
"mindist" parameter replaced with "mindistold" and "mindistnew" in
Added a possibility to account for shift between fluorescence (signal) and
phase contrast images (see
Shift of fluoresence images relative to phase section).
Improved signal addition routine in MicrobeTracker (improved performance and
eliminated rare errors which used to happen for small cells).
11.30.11: Version 0.933 released
Fixed a bug in cell shifting in MicrobeTracker, which used to make cells
that split on the first frame in a timelapse to shift to the left top corner
on frame 2.
Improved cell selection on frame change method in MicrobeTracker and added
the option (now default, parameter delchildrenonredetect to change) to
delete all progeny of a cell on all future frames when doing selected cell
detection in a timelapse.
Now the image of a removed cell in
manual joining is correctly removed.
Functions dispspot, dispspotsall and dispspotsgrid renamed to
dispcellgrid, respectively and
modified. Added cellmovie function.
Corrected the sign of integrated signal calculation for flipped cells.
Added an option to display signal profiles in
peakfinder (for parameter adjustment).
09.09.11: Version 0.932 released
Fixed bugs in SpotFinderF tool.
Added a possibility in SpotFinderZ to
perform detection in a range of frames.
Added minor features and better documented SpotFinderZ, SpotFinderF,
Fixed a bug in plothist tool (used by most histogram-plotting tools) to
allow adding modifiers when using multiple cell lists.
When changing frames in MicrobeTracker, selected cells are not selected
anymore in timelapse=0 regime based in the first cell.
Fixed a bug in MicrobeTracker with splitting on frame 1 using algorithm 2.
07.14.11: Version 0.931 released
Fixed a bug with signal calculation, which resulted in consistently lower
signal (~1.4 fold) on 32-bit Windows systems. Please, recompute if these
data are going to be used in comparison with the ones obtained on 64-bit
systems (which always worked correctly). This change was introduced in the
latest variant of version 0.930.
Added control parameter ("Shift limit") for "sticking" to pixel centers in
SpotFinderZ (trade-off between
precision and ocassional misfitting). Added a test function
testspotprecision to identify
if this parameter needs to be adjusted.
Minor inprovements in the Text-based
Batch Mode (saving/loading, adding comments, help).
Minor correction in cell numbering after manual splitting.
06.08.11: Version 0.930 released
Fixed minor bugs in manual refining, inverted image background subtraction,
cell addition on empty frames, manual splitting in timelapses, export mode.
Fixed minor bugs in saveimagestack tool.
Added missing alg1.set parameters file.
Added joinspots tool to the suite.
Updated histogram-plotting tools (such as
inthist, etc.) to suppress figure output
if necessary. Fixed minor bugs in these tools.
Added support for field names other than 'spots' to
03.23.11: Version 0.929 released: expanded input-output options of the suite
03.16.11: The paper describing the suite
appeared on the journal's website (PubMed,
03.08.11: Version 0.928 released
Fixed a bug in the recently added signal integration function that caused
Minor changes in accessory functions.
02.07.11: Version 0.927 released
The previously neglected Text-based
Batch Mode improved and documented.
A bug in backgroung subtraction for inverted images corrected.
02.04.11: The suite has been
SourceForge website via SVN for further development.
01.26.11: Version 0.926 released
Enhanced the possibilities of Manual
Operations. Added splitting cells on click and added support for
Time-lapses, where manual operations now update the
Changed the signal intergation routine. The new routine is 2x slower but
exact when integrating the signal in pixels only partially intersecting the
segment of the mesh. The previous version was using an approximation. The
new version is C-based and currenty only compiled for Windows, on other
platforms the old one will be used meanwhile.