added readme

recipes/lipsia/README.md

@@ -1,21 +1,45 @@
 
 ----------------------------------
-## REPLACE_WITH_Name_of_Container/toolVersion ##
-Short_description_of_container
+## lipsia/toolVersion ##
+
 
 Example:
 ```
+*Onesample test at the 2nd level* (`vlisa_onesample`_). 
+Example: the input is a set of contrast maps called "data_*.nii.gz"::
+
+  vlisa_onesample -in data_*.nii.gz -mask mask.nii -out result.v
+  vnifti -in result.v -out result.nii
+
+
+*Twosample test at the 2nd level* (`vlisa_twosample`_). 
+Example: input are two sets of contrast maps called "data1_*.nii.gz" and "data2_*.nii.gz"::
+
+  vlisa_twosample -in1 data1_*.nii.gz -in2 data2_*.nii.gz -mask mask.nii -out result.v
+  vnifti -in result.v -out result.nii
+
+
+*Single subject test (1st level)* (`vlisa_prewhitening`_). 
+Example: input are two runs acquired in the same session called "run1.nii.gz" and "run2.nii.gz".
+Preprocessing should include a correction for baseline drifts!::
+
+
+  vlisa_prewhitening -in run1.nii.gz run2.nii.gz -design des1.txt des2.txt -mask mask.nii -out result.v 
+  vnifti -in result.v -out result.nii
 ```
 
-More documentation can be found here: link_to_documentation
+More documentation can be found here:  https://github.com/lipsia-fmri/lipsia
 
 To make the executables and scripts inside this container transparently available in the command line of environments where Neurocommand is installed: ml REPLACE_WITH_Name_of_Container/toolVersion
 
 Citation:
 ```
+Lohmann et al (2023) "Improving the reliability of fMRI-based predictions of intelligence via semi-blind machine learning", bioRxiv, https://doi.org/10.1101/2023.11.03.565485
+
 
 ```
 
-License: 
+License: BSD-3-Clause license 
+
 
 ----------------------------------