Celltypist

- Fix error in not importing spmatrix in pct

A more mature release before the formal CellTypist v2

- Add modules of cell type harmonisation and integration (a release before the formal CellTypist v2)

- Transfer numpy matrix to array during prediction for compatibility with sklearn >= 1.0 [50](https://github.com/Teichlab/celltypist/issues/50)

- Report all model url request errors (including timeout error) [28](https://github.com/Teichlab/celltypist/issues/28)
- Add `with_mean` parameter in [celltypist.train](https://celltypist.readthedocs.io/en/latest/celltypist.train.html) to optimize RAM usage by not subtracting the mean [#29](https://github.com/Teichlab/celltypist/issues/29)
- Raise warning instead of error during prediction when the input expression matrix contains only a subset of genes
- Reformat [docs](https://celltypist.readthedocs.io/en/latest/?badge=latest#) with independent pages for main functions
- Support dot plot when the prediction comes from the 'prob match' mode [33](https://github.com/Teichlab/celltypist/issues/33)
- Disable hard-coded `max_iter` in [celltypist.train](https://celltypist.readthedocs.io/en/latest/celltypist.train.html) with default values varying according to dataset sizes

- Add citation (PMID: 35549406)
- Add Docker/Singularity container
- Fix the error of [celltypist.dotplot](https://celltypist.readthedocs.io/en/latest/celltypist.dotplot.html) when reference cluster is type of int [#22](https://github.com/Teichlab/celltypist/issues/22)
- Relax the criteria of detecting the plain file format
- Expand the docstring of [convert](https://celltypist.readthedocs.io/en/latest/celltypist.models.Model.html#celltypist.models.Model.convert) to explicitly support gene name transfer [26](https://github.com/Teichlab/celltypist/issues/26)
- Automatically transpose (with warning) the input gene-by-cell matrix instead of raising an error