Difference between revisions of "Biom-format.org"

From Free Software Directory
Jump to: navigation, search
 
(One intermediate revision by the same user not shown)
Line 25: Line 25:
 
|Is High Priority Project=No
 
|Is High Priority Project=No
 
|VCS checkout command=https://github.com/biocore/biom-format.git
 
|VCS checkout command=https://github.com/biocore/biom-format.git
|Documentation note=----
 
----
 
----
 
'''[https://www.gezapig.nl/covid.html COronaVIrus Disease 2019 (COVID-19) Special]'''
 
----
 
----
 
 
If you have corrections to this entry or questions about it, please contact: mailto:directory-discuss@gnu.org
 
----
 
 
|Decommissioned or Obsolete=No
 
|Decommissioned or Obsolete=No
 
|Version identifier=2.1.8
 
|Version identifier=2.1.8
Line 40: Line 31:
 
|Version download=https://github.com/biocore/biom-format/archive/2.1.8.tar.gz
 
|Version download=https://github.com/biocore/biom-format/archive/2.1.8.tar.gz
 
|Last review by=Bendikker
 
|Last review by=Bendikker
|Last review date=2018/03/20
+
|Last review date=2020/03/30
 
|Submitted date=2013-03-20
 
|Submitted date=2013-03-20
|Paid support=https://www.fsf.org/resources/service/
 
 
|Accepts cryptocurrency donations=No
 
|Accepts cryptocurrency donations=No
 
|Test entry=No
 
|Test entry=No
Line 48: Line 38:
 
}}
 
}}
 
{{Project license
 
{{Project license
|License=Other
+
|License=GPLv2orlater
 
|License copyright=© © 2010-2012 Greg Caporaso <gregcaporaso@gmail.com>
 
|License copyright=© © 2010-2012 Greg Caporaso <gregcaporaso@gmail.com>
 
|License verified by=Debian
 
|License verified by=Debian
 
|License verified date=2013-03-20
 
|License verified date=2013-03-20
|License note=License: GPL
 
 
This program is free software; you can redistribute it and/or
 
modify it under the terms of the GNU General Public License as
 
published by the Free Software Foundation; either version 2 of
 
the License, or (at your option) any later version.
 
 
This program is distributed in the hope that it will be useful,
 
but WITHOUT ANY WARRANTY; without even the implied warranty of
 
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU
 
General Public License for more details.
 
 
You should have received a copy of the GNU General Public License
 
along with this package; if not, write to the Free Software
 
Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA
 
02110-1301 USA
 
 
On Debian systems, the full text of the GNU General Public
 
License version 2 can be found in the file `/usr/share/common-
 
licenses/GPL-2'.
 
 
}}
 
}}
 
{{Project license
 
{{Project license
|License=Other
+
|License=GPLv2orlater
 
|License copyright=© © 2012 Andreas Tille <tille@debian.org>
 
|License copyright=© © 2012 Andreas Tille <tille@debian.org>
 
|License verified by=Debian
 
|License verified by=Debian
 
|License verified date=2013-03-20
 
|License verified date=2013-03-20
|License note=License: GPL
 
 
This program is free software; you can redistribute it and/or
 
modify it under the terms of the GNU General Public License as
 
published by the Free Software Foundation; either version 2 of
 
the License, or (at your option) any later version.
 
 
This program is distributed in the hope that it will be useful,
 
but WITHOUT ANY WARRANTY; without even the implied warranty of
 
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU
 
General Public License for more details.
 
 
You should have received a copy of the GNU General Public License
 
along with this package; if not, write to the Free Software
 
Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA
 
02110-1301 USA
 
 
On Debian systems, the full text of the GNU General Public
 
License version 2 can be found in the file `/usr/share/common-
 
licenses/GPL-2'.
 
 
}}
 
}}
 
{{Person
 
{{Person

Latest revision as of 14:43, 31 March 2020

[edit]

BIOM format

http://biom-format.org/
Biological Observation Matrix (BIOM) format.

The BIOM file format (canonically pronounced biome) is designed to be a general-use format for representing biological sample by observation contingency tables. BIOM is a recognized standard for the Earth Microbiome Project and is a Genomics Standards Consortium candidate project.

The BIOM format is designed for general use in broad areas of comparative -omics. For example, in marker-gene surveys, the primary use of this format is to represent OTU tables: the observations in this case are OTUs and the matrix contains counts corresponding to the number of times each OTU is observed in each sample. With respect to metagenome data, this format would be used to represent metagenome tables: the observations in this case might correspond to SEED subsystems, and the matrix would contain counts corresponding to the number of times each subsystem is observed in each metagenome. Similarly, with respect to genome data, this format may be used to represent a set of genomes: the observations in this case again might correspond to SEED subsystems, and the counts would correspond to the number of times each subsystem is observed in each genome.





Licensing

License

Verified by

Verified on

Notes

Verified by

Debian

Verified on

20 March 2013




Leaders and contributors

Contact(s)Role
Greg Caporaso contact


Resources and communication

AudienceResource typeURI
Debian (Ref) (R)https://tracker.debian.org/pkg/python-biom-format
VCS Repository Webviewhttps://github.com/biocore/biom-format


Software prerequisites

This entry (in part or in whole) was last reviewed on 30 March 2020.



Entry





Property "Submitted by" (as page type) with input value "{{{Submitted by}}}" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process.












"contact" is not in the list (Maintainer, Contributor, Developer, Sponsor, Unknown) of allowed values for the "Role" property.


"Debian (Ref) (R)" is not in the list (General, Help, Bug Tracking, Support, Developer) of allowed values for the "Resource audience" property.







Date 2013-03-20
Source Debian import
Source link http://packages.debian.org/sid/python-biom-format

[[Category:]]



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.