The back end files for the Scotty app. Check ReadMe for version issues.
Switch branches/tags
Nothing to show
Clone or download
Latest commit 247209d Nov 10, 2016
Permalink
Failed to load latest commit information.
README.md Update README.md Nov 10, 2016
ReadMe.pdf These are the Scotty files. Feb 4, 2013
ScottyFiles.zip These are the Scotty files. Feb 4, 2013
clusterSamples.m These are the Scotty files. Feb 4, 2013
fitVariance.m These are the Scotty files. Feb 4, 2013
getCumProbLocation.m These are the Scotty files. Feb 4, 2013
getDispersionAllComparisons.m These are the Scotty files. Feb 4, 2013
getLineMarkers.m These are the Scotty files. Feb 4, 2013
getMuSigmaLognormal.m These are the Scotty files. Feb 4, 2013
getNormalizedSamples.m These are the Scotty files. Feb 4, 2013
getOptimizationByBudget.m These are the Scotty files. Feb 4, 2013
getOptimizationByGoals.m These are the Scotty files. Feb 4, 2013
getOptimizationCharts.m These are the Scotty files. Feb 4, 2013
getParamsVariance.m These are the Scotty files. Feb 4, 2013
getPowerByReadDepth.m These are the Scotty files. Feb 4, 2013
getPowerByReadDepthNoPoisson.m These are the Scotty files. Feb 4, 2013
getPowerPlot.m These are the Scotty files. Feb 4, 2013
getPowerPlotSingleFC.m These are the Scotty files. Feb 4, 2013
getPowerTTest.m These are the Scotty files. Feb 4, 2013
getPowerTTestLogged.m These are the Scotty files. Feb 4, 2013
getProbSequencedMonteCarlo.m These are the Scotty files. Feb 4, 2013
getProbSequencedMonteCarloByReads.m These are the Scotty files. Feb 4, 2013
getProbabilitiesFromFit.m These are the Scotty files. Feb 4, 2013
getPwrBias.m These are the Scotty files. Feb 4, 2013
getRarefactionPlot.m These are the Scotty files. Feb 4, 2013
getReadDepthsRun.m These are the Scotty files. Feb 4, 2013
getReadsRequiredPerSample.m These are the Scotty files. Feb 4, 2013
getSequenceDepthParameters.m These are the Scotty files. Feb 4, 2013
getSlope.m These are the Scotty files. Feb 4, 2013
getTotalPower.m These are the Scotty files. Feb 4, 2013
moneyscale.m These are the Scotty files. Feb 4, 2013
optimizeByGoals.m These are the Scotty files. Feb 4, 2013
printResultFile.m These are the Scotty files. Feb 4, 2013
scottyEstimate.m Update scottyEstimate.m Jan 24, 2014
scottyPlotScatter.m These are the Scotty files. Feb 4, 2013
scottyPlotScatterComparingSamples.m These are the Scotty files. Feb 4, 2013
scottyReadDataFile.m These are the Scotty files. Feb 4, 2013
testVarFit.m Create testVarFit.m Jan 24, 2014

README.md

Scotty

These are the files that power the backend of the Scotty web app available at scotty.genetics.utah.edu/

These files were written using an older version of Matlab. At some point Matlab depricated one of the functions used which will cause running errors on newer versions (Matlab 2013+) of Matlab.

To use these functions on newer versions of Matlab where it says:

RandStream.setDefaultStream(s);

you have to change it to

RandStream.setGlobalStream(s);

These are located in the following lines:

getProbabilitiesFromFit Line 23

getProbSequencedMonteCarloByReads Line 7

License: Anyone can use Scotty. Ask Gabor Marth if you want to do something besides use it.