CLI-Manual.md

@@ -87,6 +87,8 @@ The schema could be saved in two formats:
 
 # DICOM MRI metadata validation
 
+The metadata validation is performed following the HBP MIP's minimum metadata requirements for MRIs, which can be found [here](https://hbpmedical.github.io/deployment/data/).
+
 ``` shell
 Usage: qctool dicom <options> <dicom folder> <report folder>
 
@@ -104,12 +106,13 @@ Options:
   --help                          Show this message and exit.
 ```
 
+
+## Options further explanation
+
 `<dicom folder>` is the root folder where all DICOM files are stored. It is assumed that each subfolder corresponds to one patient.
 
 `<report folder>` is the folder where the report files will be placed. If the folder does not exist, the tool will create it.
 
-## Options 
-
 `--loris_folder`  folder path where the dcm files are reorganized for LORIS pipeline
 
 For the LORIS pipeline the dcm files are reorganized and stored in a folder structure `<loris_folder>/<patientid>/<patientid_visitcount>`.
@@ -133,7 +136,7 @@ Please refer to the repo wiki section [Reports - Descriptions and Details](https
 
 ### validsequences.csv
 
-If there are valid sequences then the tool will create this csv file. A sequence is 'valid' if it meets the minimum requirements found [here](https://hbpmedical.github.io/deployment/data/). This file contains all the valid MRI sequences that found in given DICOM folder with the following headers discribing each sequence:
+If there are valid sequences then the tool will create this csv file. This file contains all the valid MRI sequences that found in given DICOM folder with the following headers discribing each sequence:
 
 `PatientID`, `StudyID`, `SeriesNumber`, `SeriesDescription`, `SeriesDate`