tests/testthat/_snaps/multiple-groups-test.md

In yiluheihei/microbiomeMarker: microbiome biomarker analysis toolkit

test post hoc test result

Code
  print(res_test, digits = 5)
Output
                                          comparisons diff_mean     pvalue
  Enterotype 2-Enterotype 1 Enterotype 2-Enterotype 1  -0.28139 4.7701e-08
  Enterotype 3-Enterotype 1 Enterotype 3-Enterotype 1  -0.26045 1.6364e-09
  Enterotype 3-Enterotype 2 Enterotype 3-Enterotype 2   0.02094 7.8899e-01
                             ci_lower  ci_upper
  Enterotype 2-Enterotype 1 -0.371347 -0.191443
  Enterotype 3-Enterotype 1 -0.331229 -0.189681
  Enterotype 3-Enterotype 2 -0.057576  0.099457

test visualization of posthoc test, data of signicance level annotation

Code
  annotation_single
Output
            xmin         xmax y_position annotation
  1 Enterotype 2 Enterotype 1    0.54668        ***
  2 Enterotype 3 Enterotype 1    0.61035        ***
  3 Enterotype 3 Enterotype 2    0.30558        NS.

Code
  head(annotation_all)
Output
            xmin         xmax y_position annotation           feature
  1 Enterotype 2 Enterotype 1    0.13116        NS. p__Actinobacteria
  2 Enterotype 3 Enterotype 1     0.2694        NS. p__Actinobacteria
  3 Enterotype 3 Enterotype 2    0.29804        NS. p__Actinobacteria
  4 Enterotype 2 Enterotype 1    0.57527        NS.  p__Bacteroidetes
  5 Enterotype 3 Enterotype 1    0.63693        ***  p__Bacteroidetes
  6 Enterotype 3 Enterotype 2    0.56712         **  p__Bacteroidetes

yiluheihei/microbiomeMarker documentation built on Nov. 5, 2023, 7:19 a.m.