# Tools

The `tl` module contains a collection of useful tools to use during analysis.

```{eval-rst}
.. module:: FACSPy.tl
```

```{eval-rst}
.. currentmodule:: FACSPy
```

```{eval-rst}
.. autosummary::
    :toctree: ../generated/
    :nosignatures:

    tl.mfi
    tl.fop
    tl.gate_frequencies
    tl.gate_frequencies_mem
    tl.umap
    tl._compute_umap
    tl.tsne
    tl._compute_tsne
    tl.diffmap
    tl._compute_diffmap
    tl.pca
    tl._compute_pca
    tl.parc
    tl.flowsom
    tl.leiden
    tl.phenograph
    tl.neighbors
    tl.pca_samplewise
    tl.tsne_samplewise
    tl.mds_samplewise
    tl.umap_samplewise
    tl.correct_expression
    tl.harmony_integrate
    tl.scanorama_integrate
```