Babase -- The Wiki
Contents
Using Babase
Accessing Data
Access the Database Via phpPgAdmin (You know you want to!)
Working Data Drafts - Before using any of the data linked or referred to on this page, please contact the Babase Administrator
ABRP Genomics Public Portal - Anonymized genomic data made available to the public; Babase users will likely prefer access to the original data via the database or the command line
Learning
The Babase Wiki -- The Babase website, you can help improve it!
Babase Help -- Other help links
Babase Best Practices -- Tips and suggestions to keep in mind while using the database
Babase Quiz -- New Users must take this quiz before starting work with babase. See Niki or Jake for information
Reference Material
The Babase System Technical Specifications (Web, un-paginated) (Web, paginated)
Babase/Chado -- Genetic Data (PDF) (Web, un-paginated) (Web, paginated)
Babase user FAQs
Other Babase Documentation - Wish List, To Do's Etc
Data Management
Data Management Tasks - primarily for use by Niki and Jake
Photo Organizer - a photo repository (currently undergoing testing)
Status of Babase Datasets
Dataset |
Last Updated |
Data Included |
||
Group Membership and Life Events* |
16 Oct 2019 |
Data through Sep 2019 |
||
Demography backfill |
28 Aug 2018 |
Demography note and confidence assignment backfill - complete for Linda's, Weaver's, Omo's, Viola's, Nyayo's, and Proton's groups; Dotty's group - census/demog & female ranks complete, and swerb are complete; dcauseconfidences are tentative; and male ranks during fission need adjustment. |
||
Sexual Cycles** |
16 Oct 2019 |
Cycling data through Sep 2019 (data for the TZ loss and prior requires some correction once cycgaps issues are fixed); sexskins & pcskins through Dec 2016 and backfilled through 1997 (except for Joy's and Nzige's 1997 data, which throw a lot of errors, and Acacia's 2012 + some data for Kelly in 2012, which throw mdate errors due to a failure of the code to deal properly with data subsequent to these females' cycgaps) |
||
Interaction Data |
Aug 2019 |
Data through Jun 2019 |
||
SWERB Data |
2-3x/ each week |
Data until ~(at most) 7 days previous to today |
||
Rankdates Table |
?? |
Data Through Dec 2018 (by dates assigned to obviously-adult immigrants and males > 7yrs, 5mos and residing in nonstudy groups updated through same quarter as demography and repro tables) |
||
Ranks Table |
Aug 2019 |
ALM/ADM through Dec 2018; ALF/ADF through Dec 2018 |
||
Min_Maxs view |
16 Oct 2019 |
temp and rain data from Aug 1976 through Sep 2019 |
||
Weatherhawk |
16 Oct 2019 |
WeatherHawk meterological data through Sep 2019 |
||
Princeton babase_pending tables |
16 Oct 2019 |
neonatals, subgroups, intergroup_encounters, hybridity_rawmorpho, deaths, corpse_info, & birth_minmaxs through Sep 2019, wounds and pathologies (4 tables beginning with wp_) through Mar 2019 (migration to Babase in progress) |
||
Duke babase_pending tables |
Aug 2019 |
Predation_By, Predation_On, Human_Disturb through Jun 2019 |
||
Genetic Inventory: DNA |
June 2019 |
Extracted DNA's/RNA's |
||
Genetic Inventory: Tissue |
June 2019 |
All tissues at Duke, upload of Notre Dame samples in progress |
||
Genetic Markers: msat_reactions |
2016 |
Reaction info through plate 391 |
||
Genetic Markers: msat_results |
2016 |
Results data through plate 391 |
||
Genetic Markers: Genotypes |
? |
All finalized genotypes through end of year 2016 |
||
Fecal: Prep |
13 Jun 2016 |
Fecal samples through 29 Aug 2015 |
||
Fecal: Results |
13 Jun 2016 |
All hormones through 11 Feb 2015 |
||
Source Code
All of the Babase source code is freely available right here.
(Quick link to the Main Menu)
Acknowledgments
We gratefully acknowledge the support of the National Science Foundation for the supporting the collection of the majority of the data stored in the database; in the past decade in particular we acknowledge support from IBN 9985910, IBN 0322613, IBN 0322781, BCS 0323553, BCS 0323596, DEB 0846286, DEB 0846532 and DEB 0919200. We are also very grateful for support from the National Institute of Aging (R01AG034513-01 and P01AG031719) and the Princeton Center for the Demography of Aging (P30AG024361). We also thank the Chicago Zoological Society, the Max Planck Institute for Demographic Research, the L.S.B. Leakey Foundation and the National Geographic Society for support at various times over the years.