| Name : R-datelife
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| Version : 0.6.8
| Vendor : obs://build_opensuse_org/devel:languages:R
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| Release : lp153.7.2
| Date : 2024-06-14 12:13:53
|
| Group : Development/Libraries/Other
| Source RPM : R-datelife-0.6.8-lp153.7.2.src.rpm
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| Size : 4.75 MB
| |
| Packager : (none)
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| Summary : Scientific Data on Time of Lineage Divergence for Your Taxa
|
Description :
Methods and workflows to get chronograms (i.e., phylogenetic trees with
branch lengths proportional to time), using open, peer-reviewed,
state-of-the-art scientific data on time of lineage divergence. This
package constitutes the main underlying code of the DateLife web
service at < https://www.datelife.org>. To obtain a single summary
chronogram from a group of relevant chronograms, we implement the Super
Distance Matrix (SDM) method described in Criscuolo et al. (2006)
< doi:10.1080/10635150600969872>. To find the grove of chronograms with
a sufficiently overlapping set of taxa for summarizing, we implement
theorem 1.1. from Ané et al. (2009) < doi:10.1007/s00026-009-0017-x>. A
given phylogenetic tree can be dated using time of lineage divergence
data as secondary calibrations (with caution, see Schenk (2016)
< doi:10.1371/journal.pone.0148228>). To obtain and apply secondary
calibrations, the package implements the congruification method
described in Eastman et al. (2013) < doi:10.1111/2041-210X.12051>. Tree
dating can be performed with different methods including BLADJ (Webb et
al. (2008) < doi:10.1093/bioinformatics/btn358>), PATHd8 (Britton et al.
(2007) < doi:10.1080/10635150701613783>), mrBayes (Huelsenbeck and
Ronquist (2001) < doi:10.1093/bioinformatics/17.8.754>), and treePL
(Smith and O\'Meara (2012) < doi:10.1093/bioinformatics/bts492>).
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RPM found in directory: /packages/linux-pbone/ftp5.gwdg.de/pub/opensuse/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Leap_15.3/x86_64 |
