xglom

High-throughput, multi-modal, multi-resolution characterisation of ex-vivo animal model kidneys, by assembling and integrating digital volumetric data from nanoscopic, microscopic and mesascopic imaging instruments. Ultra-high field magnetic Resonance (MR) images of ex-vivo mouse and rat kidneys will be acquired with the Monash Biomedical Imaging Agilent 9.4T animal MR scanner. Image analysis software that makes a complete count of glomeruli in a whole kidney will be deployed on the Multi-modal Australian ScienceS Imaging and Visualisation Environment (MASSIVE) cluster. Micro CT images of ex-vivo kidneys will be aquired at the Australian Synchrotron"s Imaging and Medical Beamline (IMBL). Automated tomographic image reconstruction and quantification of glomerular size and distribution will be applied using the similar software as in the MR images. Glomerular counting code to be applied to stacked optical microscopy images from the forthcoming state-of-the-art

Xglom_1-8-6
.hgignore
AnalyseThresholdStatistics.m
COPYING.TXT
CTPipeline.m
DarisDialog.fig
DarisDialog.m
DarisGui.fig
DarisGui.m
DepthMeasures_v2.m
Export2Nifti.m
ExportVolume2Tiffstack.m
GetCTDicomImage.m
GetCTtiffImage.m
GetDARISusername.m
GetDICOMImage.m
GetDICOMInfo.m
GetDarisMetaData.m
GetSubjectSpecies.m
GlomViewer.m
INSTALL
KidneyMask.m
MakeDARISuserpreferencefile.m
MaskVolume.m
MaskingTools.m
NormaliseImage.m
PlotImageHist.m
PlotImageHistNorm.m
PlotXGlomOutput.m
PlotXGlomOutputDist.m
README.Vera059
README.daris_scripts
RegularizeMRI.m
SimpleKIDPRO.fig
SimpleKIDPRO.m
ThresholdingProcess.m
XGlom_CC_Stats.m
Xglom.desktop
Xglom.fig
Xglom.m
XglomPipeline.fig
XglomPipeline.m
XglomRunPipeline.m
aar.jar
aterm.jar
dcheck
dcmtools
bin
CSA2RDA
ddestroy
ddictionary
ddoctype
dget
dicomedit_kidneys.sh
dlmcellwrite.m
dlogoff
dlogon
dls
dmethod
dpingloop
dprocessed
dpush
duploadtiff
extrems.m
fspecial3.m
imagesc3.m
inhomogenityCorrection.m
kidney.png
mfcommand
mfcommandxml
mfparameters
plugins
dicom_toolbox_version_2e
SiemensInfo.m
xglom.sh
.hg_archival.txt