Initial commit
Not quite initial commit, but might as well be.
Updated Meta to include logMDZCL
Linear regression and correlations have 3T and PP separate.
Better annotating the section Ratios. Also removing Gest as separate variable from the correlations in Ratios.
Made separate objects for initial, filtered datasets and datasets with zeroes replaced with 100s.
Saved intermediate data processing steps.
Fixed a problem with script where I had been processing the data with zeroes intact rather than Data.nozero.
Initial commit
Adjusting the function for making residual vs fitted value plots.
Changed my mind and not plotting fitted.values after all.
Understanding vooma better now. Changing a lot of things. Only partway done.
Updated graphs, have now triple-checked that my code is correct. Still need to verify from Jim that I'm understanding this correctly.
Analyzed data following Jim's advice. Made scatterplots. Counted number of sig mass features in each dataset.
Changing AbundResid function to plot mean value on x axis and quarter root of variance on the y axis.
Adjusted graph where I was trying to mimic vooma results so that now it actually does seem to mimic vooma results. Needed to show mean vs. variance of residuals instead of mean vs. variance of measurements.
Initial commit for xcms scripts and for lmFit vs paired t test, which I never did complete because it wound up being moot. For SCOR MDZ voom, adjusted multiple parameters per Jim MacDonald.
initial commit
still fiddling with things
Merge https://github.com/shirewoman2/SCOR-MDZ