| 2010-01-12 |
westcott | worked on hcluster. made .single command run using...
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commit | commitdiff | tree |
| 2010-01-05 |
westcott | you can now use a distance matrix as input for the...
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commit | commitdiff | tree |
| 2010-01-04 |
westcott | added pca command
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commit | commitdiff | tree |
| 2009-12-23 |
westcott | added average and nearest neighbor methods to hcluster
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commit | commitdiff | tree |
| 2009-12-23 |
westcott | precluster command finished
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commit | commitdiff | tree |
| 2009-12-21 |
westcott | fixed some bugs and added mgcluster command
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commit | commitdiff | tree |
| 2009-12-09 |
westcott | added sorted parameter to get.oturep, added error checking...
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commit | commitdiff | tree |
| 2009-12-08 |
westcott | added list parameter to get.seqs and remove.seqs and...
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commit | commitdiff | tree |
| 2009-12-02 |
westcott | modified sequence class to read fasta files with comments...
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commit | commitdiff | tree |
| 2009-11-25 |
westcott | a few changes to chimera classes
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commit | commitdiff | tree |
| 2009-11-24 |
westcott | changed get.sharedotu to get.sharedseqs
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commit | commitdiff | tree |
| 2009-11-24 |
westcott | changed get.sharedotu to get.sharedseqs
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commit | commitdiff | tree |
| 2009-11-24 |
westcott | fixed bug in hcluster command
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commit | commitdiff | tree |
| 2009-11-23 |
westcott | edited taxonomy equalizer to fix bug with windows
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commit | commitdiff | tree |
| 2009-11-23 |
westcott | updated phylotype command
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commit | commitdiff | tree |
| 2009-11-23 |
westcott | changed label outputs for phylotype command
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commit | commitdiff | tree |
| 2009-11-23 |
westcott | added phylotype command which reads a taxonomy file...
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commit | commitdiff | tree |
| 2009-11-19 |
westcott | fixed bug in libshuff
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commit | commitdiff | tree |
| 2009-11-17 |
westcott | final fixes for 1.7
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commit | commitdiff | tree |
| 2009-11-13 |
westcott | finished work on classify.seqs bayesian method and...
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commit | commitdiff | tree |
| 2009-11-05 |
westcott | started work on classify.seqs command. changed the...
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commit | commitdiff | tree |
| 2009-11-02 |
westcott | added groups option to read.otu, added qtrim option...
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commit | commitdiff | tree |
| 2009-10-29 |
westcott | fixed bug with hcluster
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commit | commitdiff | tree |
| 2009-10-29 |
westcott | added hcluster command and fixed some bugs, namely...
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commit | commitdiff | tree |
| 2009-10-12 |
westcott | finished chimeraslayer method and added get.listcount...
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commit | commitdiff | tree |
| 2009-09-29 |
westcott | working on chimeraslayer and found bug in shared command.
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commit | commitdiff | tree |
| 2009-09-28 |
westcott | started adding chimeraslayer method and fixed minor...
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commit | commitdiff | tree |
| 2009-09-23 |
westcott | added get.sharedotu command
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commit | commitdiff | tree |
| 2009-09-22 |
westcott | removed line option
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commit | commitdiff | tree |
| 2009-09-21 |
westcott | align.check command added
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commit | commitdiff | tree |
| 2009-09-18 |
westcott | adding more error checking for list and group files...
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commit | commitdiff | tree |
| 2009-09-18 |
westcott | removing extra file output from pintail
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commit | commitdiff | tree |
| 2009-09-17 |
westcott | added check for blank files in openInputFile, add check...
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commit | commitdiff | tree |
| 2009-09-15 |
westcott | fixed some issues while testing 1.6
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commit | commitdiff | tree |
| 2009-09-14 |
westcott | added help to chimera.seqs
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commit | commitdiff | tree |
| 2009-09-11 |
westcott | chimeracheck method added
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commit | commitdiff | tree |
| 2009-09-09 |
westcott | continued work on chimeras and fixed bug in trim.seqs...
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commit | commitdiff | tree |
| 2009-09-08 |
westcott | finished with ccode, returned bellerophon to last save...
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commit | commitdiff | tree |
| 2009-09-04 |
westcott | changed reporting in ccode to only report those who...
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commit | commitdiff | tree |
| 2009-09-04 |
westcott | ccode working - still need to paralellize
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commit | commitdiff | tree |
| 2009-09-02 |
westcott | updated pats contact and mothur header info
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commit | commitdiff | tree |
| 2009-09-01 |
westcott | changed raredisplay to use vectors instead of files
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commit | commitdiff | tree |
| 2009-09-01 |
westcott | added more descriptive error messages to sharedlist
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commit | commitdiff | tree |
| 2009-08-31 |
westcott | checking in chimera files in progress after move to...
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commit | commitdiff | tree |
| 2009-08-13 |
westcott | last changes before move
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commit | commitdiff | tree |
| 2009-08-13 |
westcott | last changes before move
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commit | commitdiff | tree |
| 2009-08-12 |
westcott | removing mallard
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commit | commitdiff | tree |
| 2009-08-11 |
westcott | chimera.seqs pintail is working.
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commit | commitdiff | tree |
| 2009-08-06 |
westcott | This is 1.5.
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commit | commitdiff | tree |
| 2009-08-06 |
westcott | bugs fixes while testing for 1.5 release
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commit | commitdiff | tree |
| 2009-08-05 |
westcott | bugs fixes while testing for 1.5 release
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commit | commitdiff | tree |
| 2009-08-05 |
westcott | bugs fixes while testing for 1.5 release
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commit | commitdiff | tree |
| 2009-08-03 |
westcott | bugs for 1.5
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commit | commitdiff | tree |
| 2009-08-03 |
westcott | bugs for 1.5
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commit | commitdiff | tree |
| 2009-08-02 |
westcott | bugs fixes while testing for 1.5 release
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commit | commitdiff | tree |
| 2009-08-01 |
westcott | bugs fixes while testing for 1.5 release
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commit | commitdiff | tree |
| 2009-07-30 |
westcott | working on chimeras
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commit | commitdiff | tree |
| 2009-07-30 |
westcott | Thallinger changes to cluster command.
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commit | commitdiff | tree |
| 2009-07-28 |
westcott | working on chimeras
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commit | commitdiff | tree |
| 2009-07-26 |
westcott | fixed bug with aligner in database class, worked on...
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commit | commitdiff | tree |
| 2009-07-22 |
westcott | worked on chimeras
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commit | commitdiff | tree |
| 2009-07-22 |
westcott | changed sequence class so that when constructor is...
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commit | commitdiff | tree |
| 2009-07-20 |
westcott | fixed bugs in venn and aligner
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commit | commitdiff | tree |
| 2009-07-14 |
westcott | *** empty log message ***
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commit | commitdiff | tree |
| 2009-07-10 |
westcott | added sorted option to get.rabund command
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commit | commitdiff | tree |
| 2009-07-09 |
westcott | added getline function to mothur and modified places...
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commit | commitdiff | tree |
| 2009-07-08 |
westcott | added stricter compilation requirements and fixed resulting...
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commit | commitdiff | tree |
| 2009-07-08 |
westcott | added system command
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commit | commitdiff | tree |
| 2009-07-08 |
westcott | added remove.seqs command
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commit | commitdiff | tree |
| 2009-07-08 |
westcott | added get.seqs command
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commit | commitdiff | tree |
| 2009-07-08 |
westcott | added list.seqs command
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commit | commitdiff | tree |
| 2009-07-06 |
westcott | fixed bug in sequencedb read for windows users and...
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commit | commitdiff | tree |
| 2009-07-02 |
westcott | made changes to concensus to find a better tree. also...
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commit | commitdiff | tree |
| 2009-06-29 |
westcott | fixed misspelling on consensus
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commit | commitdiff | tree |
| 2009-06-29 |
westcott | fixed bug in bootstrap command that was caused by globaldata...
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commit | commitdiff | tree |
| 2009-06-29 |
westcott | modified read.otu and shared command
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commit | commitdiff | tree |
| 2009-06-25 |
westcott | added logfile feature
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commit | commitdiff | tree |
| 2009-06-23 |
westcott | changed how we do "smart" distancing
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commit | commitdiff | tree |
| 2009-06-22 |
westcott | worked on parselist and shared commands, removing memory...
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commit | commitdiff | tree |
| 2009-06-19 |
westcott | version 1.4
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commit | commitdiff | tree |
| 2009-06-19 |
westcott | version working on mac with .tellg changed to unget...
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commit | commitdiff | tree |
| 2009-06-18 |
westcott | fixed some bugs
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commit | commitdiff | tree |
| 2009-06-16 |
westcott | fixed some bugs and added scriptengine
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commit | commitdiff | tree |
| 2009-06-15 |
westcott | fixing minor bugs
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commit | commitdiff | tree |
| 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 |
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