Fix: Minor UI bugs in the custom transformation editor dialog.Fix (table outputs): Reduce double commas in gate names to one.Fix: Copying or pasting a textbox in the Layout Editor preserves all styling information.Fix: Reducing dimensions of an LE table containing objects doesn't crash.Removed limit of 50 overlays in a single Layout graph item.(This tool is useful for exploring a tSNE plot for expression and co-expression of markers-a single click to get tons of info.) Select parameters-FlowJo will create a copy of the selected plot with every pair of the selected parameters controlling color in a polychromatic plot. Access is similar to the Y by Y platform (select a single graphic and choose Y by Y from the menu or the contextual menu). New 'Polychromatic Y by Y' creator in the Layout Editor.Spectral compensation UI: Minor updates.New concatenated files add a notation that this parameter should be shown in menus. But when you concatenated files and add a keyword as a new parameter, it assumed this was an uncompensated parameter and didn't show it. v9.9 no longer shows uncompensated parameters in menus by default (unless you hold down option key).Can also initialize from previously-added PCA parameters-this means you can compute PCA on a predicate sample, copy the PCA vectors to other samples, and initialize SNEe on those identically-computed vectors for greater cross-sample similarity.Can initialize the tSNE algorithm with previously-computed LDA parameters.(Together, these two improvements allow tSNE to be run on one million events with 12 parameters! Note that this can take two hours on a laptop.).Within each revision are listed the new features (major and minor), and any bug fixes. The changes are listed in reverse chronological order. Listed below are the changes made to FlowJo since the release of FlowJo, version 6.4, on November 16th 2005.

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