🎨 SSOT fMRIPrep preconfig refs

Author: shnizzedy

docs/_sources/references/preconfigs.bib

@@ -1,4 +1,28 @@
 
+@article{Este19,
+  title = {{{fMRIPrep}}: A Robust Preprocessing Pipeline for Functional {{MRI}}},
+  shorttitle = {{{fMRIPrep}}},
+  author = {Esteban, Oscar and Markiewicz, Christopher J. and Blair, Ross W. and Moodie, Craig A. and Isik, A. Ilkay and Erramuzpe, Asier and Kent, James D. and Goncalves, Mathias and DuPre, Elizabeth and Snyder, Madeleine and Oya, Hiroyuki and Ghosh, Satrajit S. and Wright, Jessey and Durnez, Joke and Poldrack, Russell A. and Gorgolewski, Krzysztof J.},
+  year = {2019},
+  month = jan,
+  journal = {Nature Methods},
+  volume = {16},
+  number = {1},
+  pages = {111--116},
+  publisher = {{Nature Publishing Group}},
+  issn = {1548-7105},
+  doi = {10.1038/s41592-018-0235-4},
+  copyright = {2018 The Author(s), under exclusive licence to Springer Nature America, Inc.},
+  langid = {english}
+}
+
+@book{fMRI16,
+  title = {{{fMRIPrep}}: {{A Robust Preprocessing Pipeline}} for {{fMRI Data}} \textemdash{} Fmriprep Stable Version Documentation},
+  author = {{fMRIPrep developers}},
+  year = {2016},
+  url = {https://fmriprep.org/en/stable/}
+}
+
 @article{Hoff21,
   title = {Reproducible {{Brain Charts}} Initiative - {{Reliability}} and {{Validity}} of {{Bifactor Models}} of {{Dimensional Psychopathology}} in {{Youth}}},
   author = {Hoffmann, Mauricio Scopel and Salum, Giovanni and Moore, Tyler Maxwell and Milham, Michael and Satterthwaite, Theodore},
@@ -33,10 +57,19 @@ @misc{Neur18a
   year = {2018},
   month = jan,
   copyright = {Apache-2.0},
-  howpublished = {NeuroData},
   url = {https://github.com/neurodata/m2g/tree/v0.1.0}
 }
 
+@misc{NiPr20,
+  title = {{{fMRIPrep}}: {{A Robust Preprocessing Pipeline}} for {{fMRI Data}}},
+  shorttitle = {{{fMRIPrep}}},
+  author = {{NiPreps Developers}},
+  year = {2020},
+  month = sep,
+  copyright = {Apache-2.0},
+  url = {https://github.com/nipreps/fmriprep}
+}
+
 @article{Rami20,
   title = {Maternal {{Interleukin-6 Is Associated With Macaque Offspring Amygdala Development}} and {{Behavior}}},
   author = {Ramirez, Julian S B and Graham, Alice M and Thompson, Jacqueline R and Zhu, Jennifer Y and Sturgeon, Darrick and Bagley, Jennifer L and Thomas, Elina and Papadakis, Samantha and Bah, Muhammed and Perrone, Anders and Earl, Eric and {Miranda-Dominguez}, Oscar and Feczko, Eric and Fombonne, Eric J and Amaral, David G and Nigg, Joel T and Sullivan, Elinor L and Fair, Damien A},

docs/_sources/user/pipelines/preconfig.rst

@@ -73,10 +73,18 @@ fmriprep-options: fmriprep-Options Pipeline
 
 Pipeline Configuration YAML: `https://github.com/FCP-INDI/C-PAC/blob/main/CPAC/resources/configs/pipeline_config_fmriprep-options.yml <https://github.com/FCP-INDI/C-PAC/blob/main/CPAC/resources/configs/pipeline_config_fmriprep-options.yml>`_
 
-This pipeline is designed to increase reproducibility with the preprocessing results of the `fmriprep pipeline package <https://fmriprep.readthedocs.io/en/stable/>`_ produced by the `Poldrack Lab at Stanford University <https://poldracklab.stanford.edu/>`_.
+This pipeline is designed to increase reproducibility with the preprocessing results of the fmriprep pipeline package :cite:`cite-fmriprep-fMRI16` produced by the `Poldrack Lab at Stanford University <https://poldracklab.stanford.edu/>`_.
 
-* `https://github.com/poldracklab/fmriprep <https://github.com/poldracklab/fmriprep>`_
-* `https://www.nature.com/articles/s41592-018-0235-4 <https://www.nature.com/articles/s41592-018-0235-4>`_
+.. bibliography:: /references/preconfigs.bib
+   :list: bullet
+
+   NiPr20
+   Este19
+
+.. bibliography:: /references/preconfigs.bib
+   :cited:
+   :keyprefix: cite-fmriprep-
+   :start: continue
 
 ndmg: Neurodata's 'ndmg-f' Pipeline
 -----------------------------------
@@ -89,6 +97,7 @@ Note, the 'ndmg_graph' connectome graph outputs are always produced by C-PAC. Th
 
 .. bibliography:: /references/preconfigs.bib
    :list: bullet
+   :start: continue
 
    Kiar18a
    Neur
@@ -104,7 +113,7 @@ RBC-options pipeline was built and integrated in C-PAC based on the Reproducible
 .. bibliography:: /references/preconfigs.bib
    :cited:
    :keyprefix: cite-rbc-
-
+   :start: continue
 
 non-human primate
 ^^^^^^^^^^^^^^^^^
@@ -118,6 +127,7 @@ This pipeline is based on the work of Xu et al. :cite:`cite-monkey-Xu19` and nhp
 
 .. bibliography:: /references/preconfigs.bib
    :list: bullet
+   :start: continue
 
    Wang21a
    Rami20