[DOC] add CLI info for group level (#128)

* verbose in ci

* update README and add group image

.circleci/config.yml

@@ -54,7 +54,7 @@ jobs:
                     mkdir -p ${HOME}/data/
                     datalad install -s ///openneuro/ds002799 ${HOME}/data/ds002799
                     cd ${HOME}/data/ds002799/derivatives/fmriprep
-                    datalad get sub-30[27]/ses-*/func/*run-*MNI152NLin2009cAsym*preproc*bold*
+                    datalad get -J 2 sub-30[27]/ses-*/func/*run-*MNI152NLin2009cAsym*preproc*bold*
                     datalad unlock sub-30[27]/ses-*/func/*run-*MNI152NLin2009cAsym*preproc*bold*
         -   save_cache:
                 key: my_cache

README.md

@@ -35,10 +35,17 @@ This can be used also for other multivariate pattern
 analyses in the absence of eye-tracking data.
 Decoded gaze positions allow computing eye movements.
 
-Some basic quality control and outliers detection is also performed.
+Some basic quality control and outliers detection is also performed:
+
+- for each run
 
 ![](https://github.com/cpp-lln-lab/bidsMReye/blob/main/docs/source/images/sub-01_task-auditory_space-MNI152NLin6Asym_desc-bidsmreye_eyetrack.png)
 
+
+- at the group level
+
+![](https://github.com/cpp-lln-lab/bidsMReye/blob/main/docs/source/images/group_eyetrack.png)
+
 For more information, see the
 [User Recommendations](https://deepmreye.slite.com/p/channel/MUgmvViEbaATSrqt3susLZ/notes/kKdOXmLqe).
 If you have other questions, please reach out to the developer team.
@@ -56,7 +63,7 @@ of deepmreye on Apple M1 for example.
 docker build --tag cpplab/bidsmreye:latest --file docker/Dockerfile .
 ```
 
-#### Pull (work in progress)
+#### Pull
 
 Pull the latest docker image:
 
@@ -157,7 +164,8 @@ If your data is not in MNI space, bidsmreye will also register the data to MNI.
 ```bash
 bidsmreye --action prepare \
           bids_dir \
-          output_dir
+          output_dir \
+          participant
 ```
 
 ## Computing the eye movements
@@ -170,7 +178,8 @@ This will also generate a quality control report of the decoded eye movements.
 ```bash
 bidsmreye --action generalize \
           bids_dir \
-          output_dir
+          output_dir \
+          participant
 ```
 ## Doing it all at once
 
@@ -179,9 +188,17 @@ bidsmreye --action generalize \
 ```bash
 bidsmreye --action all \
           bids_dir \
-          output_dir
+          output_dir \
+          participant
 ```
 
+## Group level summary
+
+bidsmreye --action qc \
+          bids_dir \
+          output_dir \
+          group
+
 ## Demo
 
 Please look up the [documentation](https://bidsmreye.readthedocs.io/en/latest/demo.html)