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Beiko: /* Software (Currently Supported) */

2015-09-04T23:51:14Z

Software (Currently Supported)

2015-07-13T13:28:47Z

Software (Currently Supported)

2015-07-10T12:19:08Z

Software (Currently Supported)

2015-07-10T12:18:13Z

2015-07-10T12:16:31Z

Software (Currently Supported)

2015-07-10T12:14:06Z

2015-05-01T15:58:13Z

2015-05-01T15:54:47Z

2015-05-01T15:53:16Z

2015-02-20T15:41:49Z

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 == Software (Currently Supported) ==
 Key: P = phylogenetics, S = statistics, B = biogeography, V = visualization, G = genomics, M = metagenomics, L = lateral genetic transfer, A = sequence alignment
 * [[ExpressBetaDiversity | Express Beta Diversity (EBD)]]: taxon- and phylogenetic-based beta diversity measures. (P)

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 * [[STAMP]]: a software package for analyzing metagenomic profiles that promotes ‘best practices’ in choosing appropriate statistical techniques and reporting results. (SMV)
-* PICA: genotype-phenotype data mining software (G). A [https://github.com/univieCUBE/PICA new version] of the software has been developed by the [http://cube.univie.ac.at/people Rattei group] at Universität Wien in Kinderhand and is hosted on Github . The older version from our lab, which is no longer supported, can be found [[PICA | here]].
+* PICA: genotype-phenotype data mining software (G). A [https://github.com/univieCUBE/PICA new version] of the software has been developed by the [http://cube.univie.ac.at/people Rattei group] at Universität Wien and is hosted on Github . The older version from our lab, which is no longer supported, can be found [[PICA | here]].
 == Older Software ==

@@ Line 23: / Line 23: @@
 * [[STAMP]]: a software package for analyzing metagenomic profiles that promotes ‘best practices’ in choosing appropriate statistical techniques and reporting results. (SMV)
-* PICA: genotype-phenotype data mining software (G). A [https://github.com/univieCUBE/PICA new version] of the software has been developed by the [http://cube.univie.ac.at/people Rattei group] at Universität Wien in Kinderhand and is hosted on Github . The older version, which is no longer supported, can be found [[PICA]] here.
+* PICA: genotype-phenotype data mining software (G). A [https://github.com/univieCUBE/PICA new version] of the software has been developed by the [http://cube.univie.ac.at/people Rattei group] at Universität Wien in Kinderhand and is hosted on Github . The older version from our lab, which is no longer supported, can be found [[PICA | here]].
 == Older Software ==

@@ Line 23: / Line 23: @@
 * [[STAMP]]: a software package for analyzing metagenomic profiles that promotes ‘best practices’ in choosing appropriate statistical techniques and reporting results. (SMV)
-* PICA: genotype-phenotype data mining software (G). A [https://github.com/univieCUBE/PICA new version] of the software has been developed by the Rattei group at Universität Wien in Kinderhand and is hosted on Github . The older version, which is no longer supported, can be found [[PICA]] here.
+* PICA: genotype-phenotype data mining software (G). A [https://github.com/univieCUBE/PICA new version] of the software has been developed by the [http://cube.univie.ac.at/people Rattei group] at Universität Wien in Kinderhand and is hosted on Github . The older version, which is no longer supported, can be found [[PICA]] here.
 == Older Software ==

@@ Line 23: / Line 23: @@
 * [[STAMP]]: a software package for analyzing metagenomic profiles that promotes ‘best practices’ in choosing appropriate statistical techniques and reporting results. (SMV)
-* PICA: genotype-phenotype data mining software (G). A [https://github.com/univieCUBE/PICA new version] of the software has been developed by the *** group at *** and is hosted on Github . The older version, which is no longer supported, can be found [[PICA]] here.
+* PICA: genotype-phenotype data mining software (G). A [https://github.com/univieCUBE/PICA new version] of the software has been developed by the Rattei group at Universität Wien in Kinderhand and is hosted on Github . The older version, which is no longer supported, can be found [[PICA]] here.
 == Older Software ==

@@ Line 23: / Line 23: @@
 * [[STAMP]]: a software package for analyzing metagenomic profiles that promotes ‘best practices’ in choosing appropriate statistical techniques and reporting results. (SMV)
@@ Line 34: / Line 35: @@
 * [[RITA]]: Rapid Identification of Taxonomic Assignments for metagenomic fragments (M).
 * [http://kiwi.cs.dal.ca/~beiko/software-and-data/radie Radié]: a tool that allows characters to be visualized against the background of a phylogenetic tree. The software includes several different visual and numeric representations of the ‘convexity’ of a given character, in other words the extent to which different character traits form distinct groups within the tree. (PV)

@@ Line 6: / Line 6: @@
 == Software (Currently Supported) ==
 Key: P = phylogenetics, S = statistics, B = biogeography, V = visualization, G = genomics, M = metagenomics, L = lateral genetic transfer, A = sequence alignment
 * [[ExpressBetaDiversity | Express Beta Diversity (EBD)]]: taxon- and phylogenetic-based beta diversity measures. (P)
@@ Line 16: / Line 14: @@
 * [[NetworkDiversity| Network Diversity]]: calculation of beta diversity over phylogenetic networks. (P)
 * [http://kiwi.cs.dal.ca/Software/rSPR rSPR]: software to calculate rooted subtree-prune-and-regraft distances and rooted agreement forests. (PL)
@@ Line 34: / Line 30: @@
 * [http://bioinformatics.org.au/eeep/ EEEP (Efficient Evaluation of Edit Paths)]: software to infer putative pathways of lateral genetic transfer by comparing gene trees against a rooted reference tree (PL)
 * [[PICA]]: genotype-phenotype data mining software (G).

← Older revision		Revision as of 15:53, 1 May 2015
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	* [http://bioinformatics.org.au/woof/ WOOF]: a tool designed to rigourously apply the principle of visual alignment validation. (SA)		* [http://bioinformatics.org.au/woof/ WOOF]: a tool designed to rigourously apply the principle of visual alignment validation. (SA)
−
−	~~== Web Services ==~~
−	* [http://ratite.cs.dal.ca/SeqMonitor SeqMonitor]
−	* [http://bio.mquter.qut.edu.au/Moa/ MOAMap]
−	* [http://fester.cs.dal.ca/manuel MANUEL]

	== Mailing list ==		== Mailing list ==

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 * [[STAMP]]: a software package for analyzing metagenomic profiles that promotes ‘best practices’ in choosing appropriate statistical techniques and reporting results. (SMV)
-* [[TBD]]
 == Older Software ==
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 * [http://www.cs.dal.ca/~whidden Chris Whidden]
 * Norman MacDonald