URL:
<http://gna.org/task/?6735>
Summary: Submission of CoalHMM
Project: Gna! Administration
Submitted by: jdutheil
Submitted on: lundi 07.09.2009 à 18:25
Status: None
Approval Status: None
Should Start On: lundi 07.09.2009 à 00:00
Should be Finished on: jeudi 17.09.2009 à 00:00
Category: Project Approval
Priority: 5 - Normal
Privacy: Public
Assigned to: None
Open/Closed: Open
Discussion Lock: Any
_______________________________________________________
Details:
A new project has been registered at Gna!
This project account will remain inactive until a site admin approves or
discards the registration.
= Registration Administration =
While this item will be useful to track the registration process, *approving
or discarding the registration must be done using the specific Group
Administration <https://gna.org/siteadmin/groupedit.php?group_id=3012> page*,
accessible only to site administrators, effectively *logged as site
administrators* (superuser):
* Group Administration
<https://gna.org/siteadmin/groupedit.php?group_id=3012>
= Registration Details =
* Name: *CoalHMM*
* System Name: *coalhmm*
* Type: Programs
* License: GNU General Public License V3 or later
----
==== Description: ====
CoalHMM is a program + library implementing the so-called Coalescent Hidden
Markov Model approach. This methodology was first introduced in 2007
[http://www.plosgenetics.org/article/info%3Adoi%2F10.1371%2Fjournal.pgen.0030007]
and further developed in
[http://www.ncbi.nlm.nih.gov/pubmed/19581452?ordinalpos=1&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DefaultReportPanel.Pubmed_RVDocSum]
The package provided here implements both the 2007 and 2009 methods, plus
further developments to be published soon. These models are currently used in
several large-scale genome sequencing projects, including Orangutan, Gorilla,
Macaques and fungus Mycosphaerella graminicola.
The package consists mostly of a C++ program linking the Bio++ libraries
http://kimura.univ-montp2.fr/BioPP/, under the CeCILL v2.0 license. The
program is itself released under the GPL v3.0 license, and the current source
code can be found here http://birc.au.dk/~jdutheil/coalhmm.tgz . Some python
and R scripts may later be included in the package as well.
==== Other Software Required: ====
The program only depends on the C++ standard library and the Bio++ libraries
(CeCILL v2.0).
_______________________________________________________
Reply to this item at:
<http://gna.org/task/?6735>
_______________________________________________
Message posté via/par Gna!
http://gna.org/
_______________________________________________
Register mailing list
[email protected]
https://mail.gna.org/listinfo/register
