GitHub - serindonnelly/libpumo: C++/Eigen tools for analysis of Purkinje cell morphology

Branches Tags

Name		Name	Last commit message	Last commit date
Latest commit History 142 Commits
vis		vis
.gitattributes		.gitattributes
.gitignore		.gitignore
Analysis.cpp		Analysis.cpp
Analysis.h		Analysis.h
AnalysisStack.cpp		AnalysisStack.cpp
AnalysisStack.h		AnalysisStack.h
AngleDistributionAnalysis.cpp		AngleDistributionAnalysis.cpp
AngleDistributionAnalysis.h		AngleDistributionAnalysis.h
AxesAnalysis.cpp		AxesAnalysis.cpp
AxesAnalysis.h		AxesAnalysis.h
Axis.cpp		Axis.cpp
Axis.h		Axis.h
Cell.cpp		Cell.cpp
Cell.h		Cell.h
DistanceDistributionAnalysis.cpp		DistanceDistributionAnalysis.cpp
DistanceDistributionAnalysis.h		DistanceDistributionAnalysis.h
DistributionAnalysis.cpp		DistributionAnalysis.cpp
DistributionAnalysis.h		DistributionAnalysis.h
Forest.cpp		Forest.cpp
Forest.h		Forest.h
ForestAnalysis.cpp		ForestAnalysis.cpp
ForestAnalysis.h		ForestAnalysis.h
ForestLoadAnalysis.cpp		ForestLoadAnalysis.cpp
ForestLoadAnalysis.h		ForestLoadAnalysis.h
ForestReduceAnalysis.cpp		ForestReduceAnalysis.cpp
ForestReduceAnalysis.h		ForestReduceAnalysis.h
HeightDistributionAnalysis.cpp		HeightDistributionAnalysis.cpp
HeightDistributionAnalysis.h		HeightDistributionAnalysis.h
Histogram2d.cpp		Histogram2d.cpp
Histogram2d.h		Histogram2d.h
JointDistributionAnalysis.cpp		JointDistributionAnalysis.cpp
JointDistributionAnalysis.h		JointDistributionAnalysis.h
ListAnalysis.cpp		ListAnalysis.cpp
ListAnalysis.h		ListAnalysis.h
LogStream.cpp		LogStream.cpp
LogStream.h		LogStream.h
Logger.cpp		Logger.cpp
Logger.h		Logger.h
MCExampleAnalysis.cpp		MCExampleAnalysis.cpp
MCExampleAnalysis.h		MCExampleAnalysis.h
MaxDistanceDistributionAnalysis.cpp		MaxDistanceDistributionAnalysis.cpp
MaxDistanceDistributionAnalysis.h		MaxDistanceDistributionAnalysis.h
MonteCarloAnalysis.cpp		MonteCarloAnalysis.cpp
MonteCarloAnalysis.h		MonteCarloAnalysis.h
Node.cpp		Node.cpp
Node.h		Node.h
NullAnalysis.cpp		NullAnalysis.cpp
NullAnalysis.h		NullAnalysis.h
ONBasis.cpp		ONBasis.cpp
ONBasis.h		ONBasis.h
ParentDistanceCloudAnalysis.cpp		ParentDistanceCloudAnalysis.cpp
ParentDistanceCloudAnalysis.h		ParentDistanceCloudAnalysis.h
ParentDistributionAnalysis.cpp		ParentDistributionAnalysis.cpp
ParentDistributionAnalysis.h		ParentDistributionAnalysis.h
ProjectionAnalysis.cpp		ProjectionAnalysis.cpp
ProjectionAnalysis.h		ProjectionAnalysis.h
SWCAnalysis.cpp		SWCAnalysis.cpp
SWCAnalysis.h		SWCAnalysis.h
Segment.cpp		Segment.cpp
Segment.h		Segment.h
TCLForest.cpp		TCLForest.cpp
TCLForest.h		TCLForest.h
WidthCalculator.cpp		WidthCalculator.cpp
WidthCalculator.h		WidthCalculator.h
WidthGroup.cpp		WidthGroup.cpp
WidthGroup.h		WidthGroup.h
analysis_stack.json		analysis_stack.json
analysis_stack_all.json		analysis_stack_all.json
common.h		common.h
main.cpp		main.cpp
readme.txt		readme.txt
roadmap.txt		roadmap.txt
teebuf.cpp		teebuf.cpp
teebuf.h		teebuf.h
teestream.cpp		teestream.cpp
teestream.h		teestream.h
vec.cpp		vec.cpp
vec.h		vec.h
vecN.h		vecN.h

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libpumo is a Library for Purkinje cell Morphology.

Libpumo provides facilities to define a stack of analyses, from raw data to results and significance tests.
Specifically, libpumo focusses on loading digitally reconstructed trees from SWC files and analysing their morphology to test hypotheses about the development of planar morphlogy in a variety of genotypes and ages.
List facilities allow changes to the dataset to be handled with a minimum of extra work.
picojson is used to facilitate data storage. The analysis stack is defined by a json document.