6 research outputs found
Seasonal variation of thermoregulatory behaviour in the Hippopotamus (Hippopotamus amphibius)
No full textGenetic consequences of population expansions and contractions in the common hippopotamus (Hippopotamus amphibius) since the Late Pleistocene
No full textSequence alignments
No full textFASTA alignments of all H. amphibius' sequences included in this study: mitochondrial control region ("Hippo_CR_all.fas"), cytochome-B ("Hippo_cytB_all.fas") and nuclear HMG-2 (Hippo_Nucl_all.fas"). Taxon ID are listed in Supplementary Table S1
XML for EBSP analysis
No full textXML file used in BEAST for the Extended Bayesian Skyline Plot (EBSP) analysis of H. amphibius, based on control region, cytochrome-b and nuclear HMG-2 sequence
XML file for molecular calibration analysis
No full textXML file used in BEAST for the molecular calibration analysis of CR H. amphibius sequences, using the split with H. liberiensis (sequence OGR) as a reference
Codes used for EBSP simulation analyses
No full textSet of codes used for generating simulated datasets and performing EBSP analyses. File "ms_beast.R" runs the coalescent simulator MS (via package "phyclust" providing a R version of MS) to generate sequences from the template file "testalt_template" and create XML input files for use in BEAST. File "run.sh" runs these XML inputs in BEAST. File "plots.R" is used to visualize generated skyline plots
