# Outputs of NiMARE

NiMARE includes a wide range of tools with a correspondingly large number of possible outputs. Here we outline the rules we apply to NiMARE outputs.

## File names

NiMARE-generated files, especially ones made by meta-analyses, follow a naming convention somewhat based on BIDS.

Here is the basic naming convention for statistical maps and tables:

```
<value>[_desc-<label>][_level-<cluster|voxel>][_corr-<FWE|FDR>][_method-<label>][_diag-<Jackknife|FocusCounter>][_tail-<positive|negative>].nii.gz
<value>[_desc-<label>][_level-<cluster|voxel>][_corr-<FWE|FDR>][_method-<label>]_tab-<clust|counts>.tsv
```

First, the `value`

represents type of data in the map (e.g., z-statistic, t-statistic).
Some of the values found in NiMARE include:

`z`

: Z-statistic`t`

: T-statistic`p`

: p-value`logp`

: Negative base-ten logarithm of p-value`chi2`

: Chi-squared value`prob`

: Probability value`stat`

: Test value of meta-analytic algorithm (e.g., ALE values for ALE, OF values for MKDA)`est`

: Parameter estimate (IBMA only)`se`

: Standard error of the parameter estimate (IBMA only)`tau2`

: Estimated between-study variance (IBMA only)`sigma2`

: Estimated within-study variance (IBMA only)`label`

: Label map

Note

For one-sided tests, p-values > 0.5 will have negative z-statistics. These values should not be confused with significant negative results. As a result, in NiMARE, these values are replaced by 0.

Next, a series of key/value pairs describe the methods applied to generate the map.

`desc`

: Description of the data type. Only used when multiple maps with the same data type are produced by the same method.`level`

: Level of multiple comparisons correction. Either`cluster`

or`voxel`

.`corr`

: Type of multiple comparisons correction. Either`FWE`

(familywise error rate) or`FDR`

(false discovery rate).`method`

: Name of the method used for multiple comparisons correction (e.g., “montecarlo” for a Monte Carlo procedure).`diag`

: Type of diagnostic. Either`Jackknife`

(jackknife analysis) or`FocusCounter`

(focus-count analysis).`tab`

: Type of table. Either`clust`

(clusters table) or`counts`

(contribution table).`tail`

: Sign of the tail for label maps. Either`positive`

or`negative`

.

## File contents

NiMARE outputs unthresholded statistical maps. Users may then threshold their results separately.

This may result in some confusion for cluster-level corrected maps, in which each _cluster_ (after applying a voxel-wise cluster-defining threshold) has an overall significance level. As such, cluster-level corrected maps contain zeros for all non-significant voxels after applying the cluster-defining threshold, and each cluster has a single value across all voxels in the cluster. All clusters surviving the cluster-defining threshold will be included in the map, including clusters that have very high p-values.