T-tests

_images/t_tests.png
  • data: matrix
    • symmetric matrix: check to extract the upper right matrix’s elements, uncheck to extract all elements
  • data: volume
    • mask: could be whole brain mask or gray matter mask.

  • filetype: filetype

  • data dir: Input directories of matrices.

  • grouping info:

    • stat type: one sample t-test, two sample t-test and paired t-test.

    • groups:
      • for two sample t-test, e.g. SZ,NC -> will do two-sample t-test for SZ and NC
      • for paired t-test, e.g. SZ,NC -> will do paired t-test for SZ and NC
      • for one sample t-test, e.g. SZ;NC -> will do one-sample t-test for both SZ and NC group

    • table: A comma-seperated values (csv) table, which is used for parsing subject names and covariates. The parsed names/ids will be matched to search results conducted with datadir and filetype. Before matching, BRANT will remove specified strings.

    • For one and two sample t-tests:

      name group filter age
      subj1 SZ center1 28
      subj2 SZ center1 27
      subj3 NC center1 30
      subj4 NC center2 25

    • For paired t-test, another column of paired_t_idx is required to specify paired subjects in each group:

      name group filter age paired_t_idx
      subj1 stage1 center1 28 1
      subj2 stage1 center1 27 2
      subj3 stage2 center1 30 1
      subj4 stage2 center2 25 2

    • string removal*: optional. remove strings from search results parsed by id index.

    • regressors*: optional. title of regressors which will be regressed out before statistical analysis. e.g. age

    • filter*: optional. use the control for subject in different state or center, fill in center1 here and subject4 won’t be included in the analysis.

    • discard subjects without info: when checked, if subjects’ information are not found in the table, a warning message will be shown; when unchecked, an error message will be shown.

  • Multiple comparison correction methods (voxel-wise)
    • threshold: the level of MULCC
    • fdrID: false discovery rate (independent input)
    • fdrN: false discovery rate (inputs not independent)
    • bonf: Bonferroni correction for family wise error rate

  • out dir: output directory for saving results.

  • Buttons:
    • S: Save parameters of the current panel to a *.mat file. The *.mat can be further loaded for the panel or be used in a script processing.
    • L: Load parameters from *.mat for the current panel.
    • ?: Help information.