added citation page to docs

Author: agladstein

docs/_toc.yml

@@ -27,3 +27,7 @@ parts:
   chapters:
   - file: development
   - file: changelogs
+- caption: Miscellaneous
+  chapters:
+  - file: citation
+

docs/citation.md

@@ -0,0 +1,84 @@
+(sec_citation)=
+
+# Citing tskit
+
+If you use `tskit` in your work, please cite the [zenodo DOI](<https://zenodo.org/records/15121152>) (*Remember to update the version to the version you used*):
+
+> Jerome Kelleher, Ben Jeffery, Yan Wong, Peter Ralph, Georgia Tsambos, Shing Hei Zhan, 
+> Kevin R. Thornton, Daniel Goldstein, Nate Pope, lkirk, Anthony Wilder Wohns, Duncan 
+> Mbuli-Robertson, pyup.io bot, Graham Gower, Hugo van Kemenade, Brian Zhang, Murillo F. 
+> Rodrigues, Castedo Ellerman, Duncan Palmer, … Saurabh Belsare. (2025). tskit-dev/tskit: 
+> Python 0.6.2 (0.6.2). Zenodo. https://doi.org/10.5281/zenodo.15121152
+
+We also recommend citing the [2024 ARG Genetics paper](<https://doi.org/10.1093/genetics/iyae100>) and the [2016 msprime PLOS Computational Biology paper](<http://dx.doi.org/10.1371/journal.pcbi.1004842>):
+> Yan Wong, Anastasia Ignatieva, Jere Koskela, Gregor Gorjanc, Anthony W 
+> Wohns, Jerome Kelleher, *A general and efficient representation of ancestral 
+> recombination graphs*, Genetics, Volume 228, Issue 1, September 2024, iyae100, 
+> https://doi.org/10.1093/genetics/iyae100
+
+> Jerome Kelleher, Alison M Etheridge and Gilean McVean (2016),
+> *Efficient Coalescent Simulation and Genealogical Analysis for Large Sample Sizes*,
+> PLOS Comput Biol 12(5): e1004842. doi: 10.1371/journal.pcbi.1004842
+
+If you use summary statistics, please cite the
+[2020 Genetics paper](https://doi.org/10.1534/genetics.120.303253):
+
+> Peter Ralph, Kevin Thornton, Jerome Kelleher, *Efficiently Summarizing 
+> Relationships in Large Samples: A General Duality Between Statistics of 
+> Genealogies and Genomes*, Genetics, Volume 215, Issue 3, 1 July 2020, 
+> Pages 779–797, https://doi.org/10.1534/genetics.120.303253
+
+
+Bibtex records:
+
+```bibtex
+% UPDATE TO THE VERSION YOU USED
+@software{Kelleher2025tskitzenodo,
+  author    = {Jerome Kelleher and Ben Jeffery and Yan Wong and Peter Ralph and Georgia Tsambos and 
+               Shing Hei Zhan and Kevin R. Thornton and Daniel Goldstein and Nate Pope and lkirk and 
+               Anthony Wilder Wohns and Duncan Mbuli-Robertson and pyup.io bot and Graham Gower and 
+               Hugo van Kemenade and Brian Zhang and Murillo F. Rodrigues and Castedo Ellerman and 
+               Duncan Palmer and Clemens Weiss and Gertjan Bisschop and Jeremy Guez and Savita Karthikeyan and 
+               Hanbin Lee and Ao Zhang and Inés Rebollo and Saurabh Belsare},
+  title     = {tskit-dev/tskit: Python 0.6.2},
+  publisher = {Zenodo},
+  year      = {2025},
+  version   = {0.6.2},
+  doi       = {10.5281/zenodo.15121152}
+}
+
+@article{Wong2024ARGs,
+  author    = {Wong, Yan and Ignatieva, Anastasia and Koskela, Jere and Gorjanc, Gregor and 
+               Wohns, Anthony W and Kelleher, Jerome},
+  title     = {A general and efficient representation of ancestral recombination graphs},
+  journal   = {Genetics},
+  volume    = {228},
+  number    = {1},
+  pages     = {iyae100},
+  year      = {2024},
+  doi       = {10.1093/genetics/iyae100}
+}
+
+@article{Kelleher2016msprime,
+  author    = {Kelleher, Jerome and Etheridge, Alison M and McVean, Gilean},
+  title     = {Efficient coalescent simulation and genealogical analysis for large sample sizes},
+  journal   = {PLoS Computational Biology},
+  volume    = {12},
+  number    = {5},
+  pages     = {e1004842},
+  year      = {2016},
+  publisher = {Public Library of Science}
+}
+
+@article{Ralph2020Stats,
+  author    = {Ralph, Peter and Thornton, Kevin and Kelleher, Jerome},
+  title     = {Efficiently Summarizing Relationships in Large Samples: A General Duality Between Statistics of Genealogies and Genomes},
+  journal   = {Genetics},
+  volume    = {215},
+  number    = {3},
+  pages     = {779--797},
+  year      = {2020},
+  doi       = {10.1534/genetics.120.303253}
+}
+
+```

docs/introduction.md

@@ -39,6 +39,10 @@ For a gentle introduction, you might like to read "{ref}`tutorials:sec_what_is`"
 on our {ref}`tutorials site<tutorials:sec_intro>`. There you can also find further
 tutorial material to introduce you to the key concepts behind succinct tree sequences.
 
+:::{important}
+If you use `tskit` in your work, please remember to cite it appropriately: see the {ref}`citations<sec_citation>` page for details.
+:::
+
 :::{note}
 This documentation is under active development and may be incomplete
 in some areas. If you would like to help improve it, please open an issue or