CHC2 v6: 1st commit
CHC2 v6 PCA plots: Changed points from letters to circles, removed ellipses
PLS-DA including adults and children
Parallel coordinates plot portion of script:
Added y axis numerical tick marks.
Spread out the x axis a bit so that group titles were easier to read.
Combined all 4 ionization modes into one graphic.
Parallel coordinates plot:
Changed colors so that top 10 most significant MFs are darker.
Initial commit with parallel coordinates plot
Initial commit.
Decided later that this was parsing the data into groups that were too small.
Adjusted the line graphs to include p values at top of each graph.
Also made the lines go the correct direction (had to swap T and N on the
x axis b/c T was reference class in the GEE but the graphs originally
listed N first on the x axis).
Minor formatting/ease of interpretation changes to code.
Initial commit.
GEE14: GEE without considering age group or UC
Main effect: Season.
Precision variable: Vocation.
Initial commit
Initial commit
Minor edits s/a loading and saving main data.
Looking at abundance as possible filter. Thinking of using TIC to
determine where to set cutoff.
Changed method for filtering low-abundance mass features so that
it filters out all MFs with mean abundance < Xth percentile rather
than trying to repiece together the original, raw abundance as a
way to filter out low-abundance compounds.
Minor changes to where things are saved, some comments
Initial commit
Fixed problems with graphs, which weren't plotting as I had it
written before. I had inadvertently named two objects "PCP".
Initial commit
Initial commit
Changed the comparison to be between GLS16 and GEE17 rather than GEE15.