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small clarification in the dataset docs
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xrotwang authored Oct 19, 2018
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## Phylogenies

| Name | Reference |
|:-------------------------------------------------------------------------------|:--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|
| [Indo-European (Bouckaert et al. 2012)](phylogenies/bouckaert_et_al2012) | Bouckaert, R. R., Lemey, P., Dunn, M., Greenhill, S. J., Alekseyenko, A. V, Drummond, A. J., Gray, R. D., Suchard, M. A., & Atkinson, Q. D. (2012). Mapping the Origins and Expansion of the Indo-European Language Family. Science, 337(6097), 957-960. |
| [Pama-Nyungen (Bowern and Atkinson 2012)](phylogenies/bowern_and_atkinson2012) | Bowern, C., & Atkinson, Q. D. (2012). Computational phylogenetics and the internal structure of Pama-Nyungan. Language, 88(4), 817-845. |
| [Tukanoan (Chacon & List 2015)](phylogenies/chacon_and_list2015) | Chacon TC, List J-M (2015) Improved computational models of sound change shed light on the history of the Tukanoan languages. Journal of Language Relationship, 3:177–203. |
| [Indo-European (Chang et al. 2015)](phylogenies/chang_et_al2015) | Chang W, Cathcart C, Hall D, Garrett A (2015) Ancestry-constrained phylogenetic analysis supports the Indo-European steppe hypothesis. Language, 91(1):194-244. |
| [Uto-Aztecan (Dunn et al. 2011)](phylogenies/dunn_et_al2011_utoaztecan) | Dunn, M., Greenhill, S. J., Levinson, S. C., & Gray, R. D. (2011). Evolved structure of language shows lineage-specific trends in word-order universals. Nature, 473(7345), 79-82. |
| [Global Classification (Glottolog 3.0)](phylogenies/glottolog_global) | Hammarström, Harald & Forkel, Robert & Haspelmath, Martin. Glottolog 3.0. 2017. Jena: Max Planck Institute for the Science of Human History. http://glottolog.org/ |
| [Austronesian (Gray et al. 2009)](phylogenies/gray_et_al2009) | Gray, R. D., Drummond, A. J., & Greenhill, S. J. (2009). Language phylogenies reveal expansion pulses and pauses in Pacific settlement. Science, 323(5913), 479-483. |
| [Bantu (Grollemund et al. 2015)](phylogenies/grollemund_et_al2015) | Grollemund, R., Branford, S., Bostoen, K., Meade, A., Venditti, C., & Pagel, M. (2015). Bantu expansion shows habitat alters the route and pace of human dispersals. Proceedings of the National Academy of Sciences of the USA, 112(43), 13296-13301. |
| [Uralic (Honkola et al. 2013)](phylogenies/honkola_et_al2013) | Honkola T, et al. (2013) Cultural and climatic changes shape the evolutionary history of the Uralic languages. Journal of Evolutionary Biology, 26(6):1244–1253. |
| [Semitic (Kitchen et al. 2009)](phylogenies/kitchen_et_al2009) | Kitchen, A., Ehret, C., Assefa, S., & Mulligan, C. J. (2009). Bayesian phylogenetic analysis of Semitic languages identifies an Early Bronze Age origin of Semitic in the Near East. Proceedings of the Royal Society B: Biological Sciences, 270(1668), 2703-2710. |
| [Japonic (Lee & Hasegawa 2011)](phylogenies/lee_and_hasegawa2011) | Lee S, Hasegawa T (2011) Bayesian phylogenetic analysis supports an agricultural origin of Japonic languages. Proceedings of the Royal Society B: Biological Sciences, 278(1725):3662–9. |
| [Tupi-Guarani (Michael et al. 2015)](phylogenies/michael_et_al2015) | Michael L, et al. (2015) A Bayesian Phylogenetic Classification of Tupi-Guarani. LIAMES 15(2):1–36. |
| [Dene-Yenesian (Sicoli & Holton 2014)](phylogenies/sicoli_and_holton2014) | Sicoli MA, Holton G (2014) Linguistic phylogenies support back-migration from Beringia to Asia. PLoS One 9(3):e91722. |
| Name | Reference |
|:-------------------------------------------------------------------------------|:--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|
| [Indo-European (Bouckaert et al. 2012)](phylogenies/bouckaert_et_al2012) | Bouckaert RR, Lemey P, Dunn M, Greenhill SJ, Alekseyenko AV, Drummond AJ, Gray RD, Suchard MA & Atkinson QD. 2012. Mapping the Origins and Expansion of the Indo-European Language Family. Science, 337(6097), 957-960. |
| [Pama-Nyungan (Bouckaert et al. 2018)](phylogenies/bouckaert_et_al2018) | Bouckaert RR, Bowern C & Atkinson QD. 2018. The origin and expansion of Pama–Nyungan languages across Australia. Nature Ecology and Evolution. 2: 741–749 |
| [Pama-Nyungen (Bowern and Atkinson 2012)](phylogenies/bowern_and_atkinson2012) | Bowern C & Atkinson QD. 2012. Computational phylogenetics and the internal structure of Pama-Nyungan. Language, 88(4), 817-845. |
| [Tukanoan (Chacon & List 2015)](phylogenies/chacon_and_list2015) | Chacon TC, List J-M (2015) Improved computational models of sound change shed light on the history of the Tukanoan languages. Journal of Language Relationship, 3:177–203. |
| [Indo-European (Chang et al. 2015)](phylogenies/chang_et_al2015) | Chang W, Cathcart C, Hall D, & Garrett A. 2015. Ancestry-constrained phylogenetic analysis supports the Indo-European steppe hypothesis. Language, 91(1):194-244. |
| [Uto-Aztecan (Dunn et al. 2011)](phylogenies/dunn_et_al2011_utoaztecan) | Dunn M, Greenhill SJ, Levinson SC & Gray RD. 2011. Evolved structure of language shows lineage-specific trends in word-order universals. Nature, 473(7345), 79-82. |
| [Global Classification (Glottolog 3.3)](phylogenies/glottolog_global) | Hammarström, Harald & Forkel, Robert & Haspelmath, Martin. Glottolog 3.3. 2018. Jena: Max Planck Institute for the Science of Human History. https://glottolog.org/ |
| [Austronesian (Gray et al. 2009)](phylogenies/gray_et_al2009) | Gray RD, Drummond AJ, & Greenhill SJ 2009. Language phylogenies reveal expansion pulses and pauses in Pacific settlement. Science, 323(5913), 479-483. |
| [Bantu (Grollemund et al. 2015)](phylogenies/grollemund_et_al2015) | Grollemund R, Branford S, Bostoen K, Meade A, Venditti C & Pagel M. 2015. Bantu expansion shows habitat alters the route and pace of human dispersals. Proceedings of the National Academy of Sciences of the USA, 112(43), 13296-13301. |
| [Uralic (Honkola et al. 2013)](phylogenies/honkola_et_al2013) | Honkola T, Vesakoski O, Korhonen K, Lehtinen J, Syrjänen K & Wahlberg N. 2013. Cultural and climatic changes shape the evolutionary history of the Uralic languages. Journal of Evolutionary Biology, 26(6):1244–1253. |
| [Semitic (Kitchen et al. 2009)](phylogenies/kitchen_et_al2009) | Kitchen A, Ehret C, Assefa S & Mulligan CJ. 2009. Bayesian phylogenetic analysis of Semitic languages identifies an Early Bronze Age origin of Semitic in the Near East. Proceedings of the Royal Society B: Biological Sciences, 270(1668), 2703-2710. |
| [Dravidian (Kolipakam et al. 2018)](phylogenies/kolipakam_et_al2018) | Kolipakam V, Jordan FM, Dunn M, Greenhill SJ, Bouckaert R, Gray RD & Verkerk A. 2018 A Bayesian phylogenetic study of the Dravidian language family. R. Soc. Open Sci. 5: 171504. |
| [Japonic (Lee & Hasegawa 2011)](phylogenies/lee_and_hasegawa2011) | Lee S, Hasegawa T (2011) Bayesian phylogenetic analysis supports an agricultural origin of Japonic languages. Proceedings of the Royal Society B: Biological Sciences, 278(1725):3662–9. |
| [Tupi-Guarani (Michael et al. 2015)](phylogenies/michael_et_al2015) | Michael L, Chousou-Polydouri N, Bartolomei K, Donnelly E, Wauters V, Meira S & O'Hagan Z. 2015. A Bayesian Phylogenetic Classification of Tupi-Guarani. LIAMES 15(2):1–36. |
| [Dene-Yenesian (Sicoli & Holton 2014)](phylogenies/sicoli_and_holton2014) | Sicoli MA & Holton G (2014) Linguistic phylogenies support back-migration from Beringia to Asia. PLoS One 9(3):e91722. |
11 changes: 10 additions & 1 deletion datasets/README.md
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- `glottocode_comment`: Comment on the assignment of a glottocode to this society.
- `societies_mapping.csv`: A CSV file mapping society IDs to similar societies in other datasets.

If a dataset provides societies (possibly exclusively), it is considered a "soceity
set" as well (or exclusively). While the D-PLACE web interface distinguishes these
two ways of contributing to D-PLACE, the data model does not - because this property
can be computed.

For a dataset to be considered for import into D-PLACE it must be registered, i.e. listed in the file [`index.csv`](index.csv), which also provides additional metadata for the dataset. [`index.csv`](index.csv) has the following columns:
- `id`: The dataset ID, i.e. the name of the subdirectory of `datasets` the data is kept in.
- `type`: one of `environmental`, `cultural`.
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```
where `<qualified-soc-id>` is a string composed as `<dataset-id>: <original name> [<soc-id>]`.

Currently the only type of relation specified in the data is "equivalence", but this may be a misnomer, since this implies that the sets of equivalent societies form a partition of the set of all societies, which is not the case.
Currently the only type of relation specified in the data is "equivalence", but this may be a misnomer, since this implies that the sets of equivalent societies form a partition of the set of all societies, which is not the case.

Note that changing the `xd_id` of a society requires re-computing the D-PLACE
internal society relations.

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