Difference between revisions of "Free Software Directory:COVID-19 Response Team"

From Free Software Directory
Jump to: navigation, search
(Pysam)
Line 37: Line 37:
 
*** https://directory.fsf.org/wiki/Pysam
 
*** https://directory.fsf.org/wiki/Pysam
 
*** https://github.com/pysam-developers/pysam
 
*** https://github.com/pysam-developers/pysam
 +
** https://github.com/neherlab/treetime
 +
** TreeTime provides routines for ancestral sequence reconstruction and inference of molecular-clock phylogenies, i.e., a tree where all branches are scaled such that the positions of terminal nodes correspond to their sampling times and internal nodes are placed at the most likely time of divergence.To optimize the likelihood of time-scaled phylogenies, TreeTime uses an iterative approach that first infers ancestral sequences given the branch length of the tree, then optimizes the positions of unconstrained nodes on the time axis, and then repeats this cycle. The only topology optimization are (optional) resolution of polytomies in a way that is most (approximately) consistent with the sampling time constraints on the tree. The package is designed to be used as a stand-alone tool on the command-line or as a library used in larger phylogenetic analysis work-flows.
 +
*** https://tracker.debian.org/pkg/python-treetime
 +
*** https://directory.fsf.org/wiki/Treetime
  
 
[[Category:Project Team]]
 
[[Category:Project Team]]

Revision as of 12:25, 10 April 2020

Free Software Foundation COVID-19 Response Team.png

About the Covid-19 Medical Group

Team Captain: David Hedlund

Participants:

Free 3D-printing files

Free software



Permission is granted to copy, distribute and/or modify this document under the terms of the GNU Free Documentation License, Version 1.3 or any later version published by the Free Software Foundation; with no Invariant Sections, no Front-Cover Texts, and no Back-Cover Texts. A copy of the license is included in the page “GNU Free Documentation License”.

The copyright and license notices on this page only apply to the text on this page. Any software or copyright-licenses or other similar notices described in this text has its own copyright notice and license, which can usually be found in the distribution or license text itself.