| 2009-06-15 |
westcott | removed validcommands and put its checking in commandfactory.
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commit | commitdiff | tree |
| 2009-06-12 |
westcott | broke up globaldata and moved error checking and help...
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commit | commitdiff | tree |
| 2009-06-08 |
westcott | got rid of extra temp files in dist.seqs
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commit | commitdiff | tree |
| 2009-06-08 |
westcott | added help for heatmap.sim
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commit | commitdiff | tree |
| 2009-06-08 |
westcott | added heatmap.sim command and changed heatmap to heatmap.bin
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commit | commitdiff | tree |
| 2009-06-08 |
westcott | dist.seqs can now use n processors, and only outputs...
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commit | commitdiff | tree |
| 2009-06-05 |
westcott | line and label no longer persist between commands....
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commit | commitdiff | tree |
| 2009-06-04 |
westcott | removed readseqs, readfasta, readnexus, readclustal...
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commit | commitdiff | tree |
| 2009-06-04 |
westcott | fixed some bugs
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commit | commitdiff | tree |
| 2009-06-03 |
westcott | added get.rabund and get.sabund command and fixed bug...
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commit | commitdiff | tree |
| 2009-06-02 |
westcott | allow user to input quit instead of quit()
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commit | commitdiff | tree |
| 2009-06-02 |
westcott | added smart distance feature and optimized all commands...
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commit | commitdiff | tree |
| 2009-06-01 |
westcott | fixed bug for windows users with read.dist
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commit | commitdiff | tree |
| 2009-06-01 |
westcott | *** empty log message ***
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commit | commitdiff | tree |
| 2009-05-27 |
westcott | fixed multiple bugs for 1.4 release
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commit | commitdiff | tree |
| 2009-05-22 |
westcott | changed defaults for filter.seqs()
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commit | commitdiff | tree |
| 2009-05-22 |
westcott | changed defaults in allign.seqs command
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commit | commitdiff | tree |
| 2009-05-21 |
westcott | fixed bugs
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commit | commitdiff | tree |
| 2009-05-21 |
westcott | modified bin.seqs and get.oturep commands to include...
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commit | commitdiff | tree |
| 2009-05-21 |
westcott | added ability to put # in front of any line in the...
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commit | commitdiff | tree |
| 2009-05-21 |
westcott | fixed Thomas' calculators
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commit | commitdiff | tree |
| 2009-05-21 |
westcott | fixed blast code path problem
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commit | commitdiff | tree |
| 2009-05-21 |
westcott | added dist.shared command
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commit | commitdiff | tree |
| 2009-05-20 |
westcott | added get.repseqs command, started matrix output command
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commit | commitdiff | tree |
| 2009-05-18 |
westcott | added shen calculator
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commit | commitdiff | tree |
| 2009-05-18 |
westcott | added shen calculator
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commit | commitdiff | tree |
| 2009-05-18 |
westcott | added help for alignment code and thomas' calcs to...
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commit | commitdiff | tree |
| 2009-05-18 |
westcott | added boneh, efron, and solow calculators
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commit | commitdiff | tree |
| 2009-05-18 |
westcott | added alignment code
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commit | commitdiff | tree |
| 2009-05-15 |
westcott | fixed if defined in dist.seqs command
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commit | commitdiff | tree |
| 2009-05-15 |
westcott | fixed memory leak in collect.shared()
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commit | commitdiff | tree |
| 2009-05-15 |
westcott | speed up rarefaction.shared
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commit | commitdiff | tree |
| 2009-05-15 |
westcott | fixed bug in heatmap
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commit | commitdiff | tree |
| 2009-05-14 |
westcott | fixed memory leak in rarefact
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commit | commitdiff | tree |
| 2009-05-14 |
westcott | fixed bug in venn command
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commit | commitdiff | tree |
| 2009-05-13 |
westcott | changed name of distance command to dist.seqs
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commit | commitdiff | tree |
| 2009-05-13 |
westcott | changed all shared commands so that they read the shared...
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commit | commitdiff | tree |
| 2009-05-13 |
westcott | fixed bug with getting sharedrabunds for venn, heatmap...
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commit | commitdiff | tree |
| 2009-05-12 |
westcott | added distance command and filterseqs
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commit | commitdiff | tree |
| 2009-05-08 |
westcott | altered venn command to make use of sharedchao for...
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commit | commitdiff | tree |
| 2009-05-07 |
westcott | fixed concensus command and modified tree class so...
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commit | commitdiff | tree |
| 2009-05-04 |
westcott | fixed xp user bug with rarefact commands and cluster...
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commit | commitdiff | tree |
| 2009-05-04 |
westcott | added concensus command and updated calcs
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commit | commitdiff | tree |
| 2009-05-04 |
westcott | added concensus command and updated calcs
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commit | commitdiff | tree |
| 2009-05-04 |
westcott | added concensus command
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commit | commitdiff | tree |
| 2009-04-22 |
westcott | changed heatmap and venn command to use vector of sharedrabu...
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commit | commitdiff | tree |
| 2009-04-21 |
westcott | broke apart read matrix file
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commit | commitdiff | tree |
| 2009-04-21 |
westcott | fixed bug with get.oturep and fixed problem with errorchecko...
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commit | commitdiff | tree |
| 2009-04-21 |
westcott | fixed bug with parsimony(groups=all) and unifrac.unweighted...
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commit | commitdiff | tree |
| 2009-04-21 |
westcott | fixed bug in venn command which caused error when user...
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commit | commitdiff | tree |
| 2009-04-17 |
westcott | added bootstrap.shared command and fixed some bugs...
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commit | commitdiff | tree |
| 2009-04-14 |
westcott | removed "shared" from some of the calculator names...
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commit | commitdiff | tree |
| 2009-04-14 |
westcott | added log10 and log2 scalers for heatmap
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commit | commitdiff | tree |
| 2009-04-14 |
westcott | started shared utilities, updates to venn and heatmap...
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commit | commitdiff | tree |
| 2009-04-08 |
westcott | fixed bug in read.tree updates help and validparameters...
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commit | commitdiff | tree |
| 2009-04-06 |
westcott | added get.oturep command
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commit | commitdiff | tree |
| 2009-04-06 |
westcott | fixed memory leak in parsimony calculator and added...
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commit | commitdiff | tree |
| 2009-04-03 |
westcott | venn command with up to 4 groups using sharedsobs,...
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commit | commitdiff | tree |
| 2009-04-02 |
westcott | venn command with up to 4 groups
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commit | commitdiff | tree |
| 2009-03-31 |
westcott | started venn command
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commit | commitdiff | tree |
| 2009-03-30 |
westcott | made sorting optional but sort by default, in case...
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commit | commitdiff | tree |
| 2009-03-30 |
westcott | added sort to heatmap to put shared otus at the top...
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commit | commitdiff | tree |
| 2009-03-27 |
westcott | fixed reference issue
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commit | commitdiff | tree |
| 2009-03-27 |
westcott | added heatmap command
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commit | commitdiff | tree |
| 2009-03-27 |
westcott | added heatmap command
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commit | commitdiff | tree |
| 2009-03-26 |
westcott | heatmap
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commit | commitdiff | tree |
| 2009-03-25 |
westcott | started heatmap command
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commit | commitdiff | tree |
| 2009-03-24 |
westcott | added sharedbraycurtis, sharedmorisirahorn, sharedkulczynski...
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commit | commitdiff | tree |
| 2009-03-23 |
westcott | added sharedochiai and sharedanderberg calculators
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commit | commitdiff | tree |
| 2009-03-23 |
westcott | fixed libshuff signif. values
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commit | commitdiff | tree |
| 2009-03-23 |
westcott | put back no command and worked on libshuff
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commit | commitdiff | tree |
| 2009-03-20 |
westcott | removed no command because it is never called now that...
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commit | commitdiff | tree |
| 2009-03-20 |
westcott | documentation
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commit | commitdiff | tree |
| 2009-03-19 |
westcott | fixed memory leak globaldata container structures,...
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commit | commitdiff | tree |
| 2009-03-19 |
westcott | fixed memory leak of groupmap in reads
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commit | commitdiff | tree |
| 2009-03-19 |
westcott | updated errorchecking so it checks if the parameter...
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commit | commitdiff | tree |
| 2009-03-19 |
westcott | libshuff and updated help to include libshuff and modificati...
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commit | commitdiff | tree |
| 2009-03-18 |
westcott | working on libshuff
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commit | commitdiff | tree |
| 2009-03-16 |
westcott | added nseqs and sharednseqs calculators, removed excess...
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commit | commitdiff | tree |
| 2009-03-10 |
westcott | working on libshuff
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commit | commitdiff | tree |
| 2009-03-09 |
westcott | added abs() to weighted and unweighted to account for...
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commit | commitdiff | tree |
| 2009-03-09 |
westcott | fixed bug in read.tree
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commit | commitdiff | tree |
| 2009-03-09 |
westcott | fixed bug in summary.shared for groups
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commit | commitdiff | tree |
| 2009-03-09 |
westcott | fixed bug with line and label parameters and added...
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commit | commitdiff | tree |
| 2009-03-09 |
westcott | deleted read.shared command and added its functionality...
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commit | commitdiff | tree |
| 2009-03-09 |
westcott | added ability for user to select which groups to analyze...
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commit | commitdiff | tree |
| 2009-03-09 |
westcott | fixed outputs in unifrac to look the same
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commit | commitdiff | tree |
| 2009-03-09 |
westcott | fixed memory issue with cluster command
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commit | commitdiff | tree |
| 2009-03-09 |
westcott | fixed valid parameters to include shared parameter...
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commit | commitdiff | tree |
| 2009-03-06 |
westcott | got rid of rd_parsimony ext.
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commit | commitdiff | tree |
| 2009-03-06 |
westcott | fixed bug wit unifrac files
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commit | commitdiff | tree |
| 2009-03-06 |
westcott | added full matrix files
|
commit | commitdiff | tree |
| 2009-03-06 |
westcott | fixed bug in random option of parsimony()
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commit | commitdiff | tree |
| 2009-03-06 |
westcott | changed format of output in unifrac and parsimony files
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commit | commitdiff | tree |
| 2009-03-06 |
westcott | fixed bug in read tree
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commit | commitdiff | tree |
| 2009-03-06 |
westcott | fixed bug in read tree
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commit | commitdiff | tree |
| 2009-03-05 |
westcott | working on readtree
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commit | commitdiff | tree |
| 2009-03-04 |
westcott | unifrac.weighted
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commit | commitdiff | tree |
| 2009-03-03 |
westcott | parsimony output changed
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commit | commitdiff | tree |
| 2009-03-03 |
westcott | unifrac.unweighted command changes
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commit | commitdiff | tree |
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