Auxiliary Material for
Probabilistic Sequence Alignment of Stratigraphic Records
Luan Lin
(Division of Applied Mathematics, Brown University, Providence RI 02912, USA)
Deborah Khider
(Department of Earth Science, University of California, Santa Barbara, Santa Barbara, CA 93106, USA)
Lorraine E. Lisiecki
(Department of Earth Science, University of California, Santa Barbara, Santa Barbara, CA 93106, USA)
Charles E. Lawrence
(Division of Applied Mathematics, Brown University, Providence RI 02912, USA)
Paleoceanography
Introduction
The supplemental materials include a brief primer on HMM-Match, the algorithms developed for Forward algorithm,Back sampling algorithm, Baum-Welch, Viterbi and median alignment; the complete figures for the alignments of all the 35 Late Pleistocene benthic d18O records we performed and their reference information; and figures helping to clarify the method.
1. text01.pdf Brief Primer on HMM-Match.
2. text02.pdf Algorithms developed for Forward algorithm, Back sampling algorithm, Baum-Welch parameter estimation; Viterbi alignment and median alignment.
3. text03.pdf Figures for the alignments of all the 35 Late Pleistocene benthic d18O records.
4. fs.pdf Supplementary Figures (Figure S1 - Figure S7)
5. ts01.pdf Radiocarbon data used to estimate sedimentation rates for ratio histogram (Figure 2).
5.1 Column 1-5, Core name, Latitude, Longitude, Depth, Resolution.
5.2 Column 6, Reference.
6. ts02.pdf Late Pleistocene benthic d18O records.
6.1 Column 1, Core name.
6.2 Column 2, Reference.
7. ts03.pdf Sedimentation rates (in cm/kyr) as estimated using the mode of Bchron-modeled ages (in kyr) for radiocarbon data from 37 cores (see citations in Supplemental Table S1). Sedimentation rates are assumed to remain constant between each of radiocarbon measurement. Our estimate of the distribution of sedimentation rates (Figure 2) includes only sedimentation rate estimates between closely spaced radiocarbon measurements (0.5 - 4 kyr apart). Data shown in Figure 2 have also been normalized by dividing by each core's mean sedimentation rate.