animate2d | Animate 2D expressions along one axis and generate GIF file. |
doadJunker2014 | Load data of Junker2014 from cache. |
downloadJunker2014 | Download part of the Tomo-seq data published by Junker et al. |
estimate3dExpressions | Estimate 3d expressions |
extractGeneList | Extract geneIDs to which hoge can be applied. |
findAxialGenes | Find peak genes on axial |
getReconstructedResult | Get reconstructed matrix |
imageViewer | Output the reconstructed expression pattern as an image. |
mask | A matrix containing mask data. |
masker | Make mask |
plot1dAllExpression | Plot expressions of all genes along an axis |
plot1dExpression | Plot expression of single gene along an axis |
plotLossFunction | Plot the trend of the value of the loss function. |
testx | A data.frame object containing a simulated Tomo-seq data for x-axis sections. |
testy | A data.frame object containing a simulated Tomo-seq data for y-axis sections. |
testz | A data.frame object containing a simulated Tomo-seq data for z-axis sections. |
toDataFrame | Convert reconstructed matrix to data.frame. |
tomoObj | A tomoSeq object. |