Add options for quicker runs of protein and RNA analyses

• Plus some bug fixes thanks to @fredricj!

Integrated velocity calculation script into RNACellCycle script

Merge pull request #14 from CellProfiling/IntegrateVelocityScripts

Update input links

Updated inputs, outputs, normalization method

• Simplified some input files; added raw intensities for RNA FACS sorting
• Output now includes phi calculated for each cell
• Normalization method for RNA fucci intensities updated

Spatiotemporal dissection of the cell cycle

This is the version of the code used in the paper "Spatiotemporal dissection of the cell cycle with single-cell proteogenomics." https://www.nature.com/articles/s41586-021-03232-9.