add introduction

_quarto.yml

@@ -15,7 +15,7 @@ book:
     - notebooks/usecase.qmd
     - notebooks/file_formats.qmd
     - notebooks/in_memory.qmd
-    - notebooks/workflows.qmd
+    - notebooks/workflows/index.qmd
     - book/book_slides.qmd
     - book/references.qmd
 

book/references.bib

@@ -21,3 +21,18 @@ @misc{s3-op3
   year = {2024},
   url = {https://openproblems-bio.s3.amazonaws.com/public/neurips-2023-competition/sc_counts_reannotated_with_counts.h5ad}
 }
+
+@article{Heumos2023,
+  title = {Best practices for single-cell analysis across modalities},
+  volume = {24},
+  ISSN = {1471-0064},
+  url = {http://dx.doi.org/10.1038/s41576-023-00586-w},
+  DOI = {10.1038/s41576-023-00586-w},
+  number = {8},
+  journal = {Nature Reviews Genetics},
+  publisher = {Springer Science and Business Media LLC},
+  author = {Heumos,  Lukas and Schaar,  Anna C. and Lance,  Christopher and Litinetskaya,  Anastasia and Drost,  Felix and Zappia,  Luke and L\"{u}cken,  Malte D. and Strobl,  Daniel C. and Henao,  Juan and Curion,  Fabiola and Aliee,  Hananeh and Ansari,  Meshal and Badia-i-Mompel,  Pau and B\"{u}ttner,  Maren and Dann,  Emma and Dimitrov,  Daniel and Dony,  Leander and Frishberg,  Amit and He,  Dongze and Hediyeh-zadeh,  Soroor and Hetzel,  Leon and Ibarra,  Ignacio L. and Jones,  Matthew G. and Lotfollahi,  Mohammad and Martens,  Laura D. and M\"{u}ller,  Christian L. and Nitzan,  Mor and Ostner,  Johannes and Palla,  Giovanni and Patro,  Rob and Piran,  Zoe and Ramírez-Suástegui,  Ciro and Saez-Rodriguez,  Julio and Sarkar,  Hirak and Schubert,  Benjamin and Sikkema,  Lisa and Srivastava,  Avi and Tanevski,  Jovan and Virshup,  Isaac and Weiler,  Philipp and Schiller,  Herbert B. and Theis,  Fabian J.},
+  year = {2023},
+  month = mar,
+  pages = {550–572}
+}