Update Readme

- add some instructions on how to use the plugins

README.md

@@ -1,6 +1,6 @@
 # NanoZoomer-J
 
-NanoZoomer-J is a collection of [ImageJ][imagej] plugins to deal with the 
+NanoZoomer-J is a small collection of [ImageJ][imagej] plugins to deal with the 
 NDPI image file format. 
 The "NDPI 2 OME-TIF" converter uses [Bio-Formats][bf] to convert the proprietary 
 file format to the open ome-tif without loading the entire file into memory, 
@@ -12,6 +12,21 @@ The packaged binaries can be found on the [release-page][release]. To install th
 in ImageJ, the downloaded jar-file can be dragged and dropped on the ImageJ main UI, or via the 
 main menu: Plugins > Install PlugIn... 
 
+
+# Usage
+
+Once the jar has been added to ImageJ, the plugins can be run via the menu:
+`Plugins > NanoZooomer NDPI > ...`
+
+## Batch Converter
+
+The batch converter takes an input directory, searches it for NDPI files and then lets you choose the 
+channels and the pixel size to convert. Once the directory has been selected, it takes a short moment
+to read the meta data from the first NDPI file. The order of the channels can be chosen by 
+sequentially clicking on them in the selection table. All the channels are then merged into
+a single multi-channel OME-TIF.
+
+
 [imagej]: http://imagej.net
 [bf]: http://www.openmicroscopy.org/site/products/bio-form…
-[release]: https://github.com/Meyenhofer/NanoZoomer-J/releases
+[release]: https://github.com/fmeyenhofer/NanoZoomer-J/releases