Metadata-Version: 2.1
Name: mcd_stitcher
Version: 0.1.2
Summary: MCD to Zarr conversion and stitching
Home-page: https://github.com/PawanChaurasia/mcd_stitcher
Author: Pawan Chaurasia
Author-email: pchaurasia98@gmail.com
Project-URL: Bug Tracker, https://github.com/PawanChaurasia/mcd_stitcher/issues
Classifier: Programming Language :: Python :: 3
Classifier: License :: OSI Approved :: MIT License
Classifier: Operating System :: OS Independent
Requires-Python: >=3.7
Description-Content-Type: text/markdown
License-File: LICENSE
Requires-Dist: click
Requires-Dist: numpy
Requires-Dist: pandas
Requires-Dist: python_dateutil
Requires-Dist: xarray
Requires-Dist: zarr
Requires-Dist: scikit-image

# MCD STITCHER

Stitch rois from MCD files into OME-TIFFS.

## Install

```
pip install mcd_stitcher
```

### Requirements

* click
* numpy
* pandas
* python_dateutil
* xarray
* zarr
* scikit-image

## Command line usage

*MCD to Zarr converter

imc2zarr <mcd_folder> <zarr_folder>

*Zarr dataset stitcher

zarr_stitch <zarr_folder>

*Composite MCD to Zarr to Stitch function

mcd_stitch <mcd_folder> <zarr_folder>

### Arguments
* mcd_folder:
  * The root folder of the IMC scan containing a single and/or multiple mcd files.
* zarr_folder: 
  * Storage location of converted MCD files in Zarr format and the starting point for stitching zarr files.
