Add ion-channel-selector module used by IC-Selector (#179)

* add ion-channel-selector * update readme * add NEURON citation * update authors order * fix a typo in L5PC readme --------- Co-authored-by: Kiliç Ilkan Fabrice <[email protected]>
BlueBrain · Dec 9, 2024 · dccd16d · dccd16d
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diff --git a/.zenodo.json b/.zenodo.json
@@ -6,8 +6,8 @@
     "creators": [
       {
         "affiliation": "Blue Brain Project, EPFL",
-        "name": "Damart, Tanguy Pierre Louis",
-        "orcid": "0000-0003-2175-7304"
+        "name": "Mandge, Darshan",
+        "orcid": "0000-0002-7104-4604"
       },
       {
         "affiliation": "Blue Brain Project, EPFL",
@@ -16,8 +16,8 @@
       },
       {
         "affiliation": "Blue Brain Project, EPFL",
-        "name": "Mandge, Darshan",
-        "orcid": "0000-0002-7104-4604"
+        "name": "Damart, Tanguy Pierre Louis",
+        "orcid": "0000-0003-2175-7304"
       },
       {
         "affiliation": "Blue Brain Project, EPFL",

diff --git a/AUTHORS.txt b/AUTHORS.txt
@@ -1,6 +1,6 @@
-Tanguy Damart @ BBP
-Aurélien Jaquier @ BBP
 Darshan Mandge @ BBP
+Aurélien Jaquier @ BBP
+Tanguy Damart @ BBP
 Ilkan Kilic @ BBP
 Anil Tuncel @ BBP
 Alexis Arnaudon @ BBP

diff --git a/CITATION.cff b/CITATION.cff
@@ -5,12 +5,12 @@ doi: 10.5281/zenodo.8283490
 url: https://doi.org/10.5281/zenodo.8283490
 abstract: "BluePyEModel is a Python package facilitating the configuration and execution of electrical neuron model (e-model) building tasks. It covers tasks such as extraction of electrical features from electrophysiology data, e-model parameters optimisation and model validation. As such, it builds on top of eFEL, BluePyEfe and BluePyOpt."
 authors:
-  - family-names: "Damart"
-    given-names: "Tanguy"
-  - family-names: "Jaquier"
-    given-names: "Aurélien"
   - family-names: "Mandge"
     given-names: "Darshan"
+  - family-names: "Jaquier"
+    given-names: "Aurélien"
+  - family-names: "Damart"
+    given-names: "Tanguy"
   - family-names: "Kilic"
     given-names: "Ilkan"
   - family-names: "Tuncel"

diff --git a/README.rst b/README.rst
@@ -30,10 +30,21 @@ Note that this package only covers e-model building based on patch-clamp data an
 
 How to cite
 -----------
-If you use this repository in your work, please refer to the ``Cite this repository`` button at the top of the repository page to get various citation formats, including APA and BibTeX.
+If you use this repository in your work, please use the ``Cite this repository`` button at the top of the repository page to get various citation formats, including APA and BibTeX.
 
 For detailed citation information, please refer to the `CITATION.cff <./CITATION.cff>`_ file.
 
+Additionally, to cite software used for different steps of the pipeline, please use these :
+
+- Optimisation and Validation:
+   - ``BluePyOpt``: `Van Geit et al., 2016 <https://doi.org/10.3389/fninf.2016.00017>`_
+   - ``NEURON``:  The NEURON Book: Carnevale and Hines 2006 : https://doi.org/10.1017/CBO9780511541612
+
+- Feature Extraction:
+   - ``eFEL``: `Zenodo DOI: 10.5281/zenodo.593869 <https://doi.org/10.5281/zenodo.593869>`_
+   - ``BluePyEfe``: `Zenodo DOI: 10.5281/zenodo.3728191 <https://doi.org/10.5281/zenodo.3728191>`_
+
+- Ion Channel Selector: `Me-Features-to-Mo-ID Mapping <https://github.com/BlueBrain/me-features-to-mo-ID-mapping>`_: paper: `Roussel et al., 2023 <https://doi.org/10.1371/journal.pcbi.1010058>`_
 
 Installation
 ------------