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mothur.git
2012-09-11
Sarah Westcott
added count file to get.groups and remove.groups. added...
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2012-09-07
Sarah Westcott
major change to the tree class to use the count table...
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2012-08-24
Sarah Westcott
added sff.multiple command. fixed issue with windows...
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2012-08-21
Sarah Westcott
added oligos, pdiffs, bdiffs, ldiffs, sdiffs, tiffs...
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2012-08-14
Sarah Westcott
added code to format fast files for uchime. started...
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2012-08-13
Sarah Westcott
added count file to chimera.uchime. found issue with...
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2012-08-08
Sarah Westcott
added count parameter to chimera.slayer command
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2012-08-08
Sarah Westcott
added SequenceCountParser class to parse the count...
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2012-08-06
Sarah Westcott
changes while testing 1.27
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2012-08-01
Sarah Westcott
paralellized chop.seqs
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2012-07-31
Sarah Westcott
added count file to cluster.classic and cluster.split...
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2012-07-30
Sarah Westcott
fixed subsample name file name issue. added count...
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2012-07-27
Sarah Westcott
added sparseDistanceMatrix class. Modified cluster...
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2012-07-11
Sarah Westcott
working on adding count file to mgcluster
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2012-07-11
Sarah Westcott
working on mgcluster count file change
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2012-07-11
Sarah Westcott
Merge remote-tracking branch 'origin/master'
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2012-07-11
Sarah Westcott
added debug statements to trim.seqs
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2012-07-11
Kathryn Iverson
merged mgcluster. kw files added, but not working in...
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2012-07-10
Sarah Westcott
changes while testing 1.26
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2012-07-03
Kathryn Iverson
fixed pointers in mgcluster
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2012-07-03
Kathryn Iverson
fixed kw parameter types
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2012-07-03
Kathryn Iverson
updated mgcluster to take count file
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2012-07-03
Kathryn Iverson
updated parameters for kw
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2012-07-03
Kathryn Iverson
Merge branch 'master' of https://github.com/mothur...
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2012-07-03
Sarah Westcott
changes while testing 1.26
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2012-07-02
Kathryn Iverson
updated getgroupnames
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2012-07-02
kdiverson
fixed io
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2012-07-02
kdiverson
cleaned up code2
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2012-06-29
kdiverson
cleaned up code
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2012-06-29
kiverson
removed comments
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2012-06-28
Kathryn Iverson
updated kruskalwallis struct
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2012-06-28
Kathryn Iverson
updated kruskalwallis struct
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2012-06-28
Sarah Westcott
added countable class to read and store count file...
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2012-06-28
Kathryn Iverson
updated kruskalwallis command
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2012-06-26
Kathryn Iverson
added kruskalwallis command
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2012-06-26
Sarah Westcott
Merge remote-tracking branch 'origin/master'
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2012-06-26
Sarah Westcott
made make.table alias to count.seqs command. added...
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2012-06-26
Kathryn Iverson
removed print statements from testing
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2012-06-22
Kathryn Iverson
added large parameter to mgcluster along with new rabun...
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2012-06-22
kiverson
removed comments
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2012-06-21
Kathryn Iverson
edited createRabund function
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2012-06-20
Kathryn Iverson
edited createRabund function
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2012-06-20
Kathryn Iverson
added createRabund function to mgcluster
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2012-06-20
Kathryn Iverson
added ifelse for rabund
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2012-06-20
Kathryn Iverson
testing new devel branch
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2012-06-19
Sarah Westcott
added phylip as output file type for commands that...
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2012-06-19
Sarah Westcott
added load.logfile command. changed summary.single...
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2012-06-12
Sarah Westcott
changed reading of name file to use buffered reads...
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2012-06-11
Sarah Westcott
fixed bug with dist.shared subsampling. added mode...
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2012-06-05
Sarah Westcott
added forward and reverse barcodes to trim.seqs to...
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2012-06-04
Sarah Westcott
fixed classify.seqs output file name - had issue if...
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2012-06-04
Sarah Westcott
added check to make sure shhh.flows child processes...
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2012-05-29
Sarah Westcott
added code to check path for uchime and catchall execut...
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2012-05-24
Sarah Westcott
forced rarefaction.single to output ending line for...
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2012-05-24
Sarah Westcott
fixed bug in sffinfo when ~ was used in the sff filenam...
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2012-05-23
Sarah Westcott
added metadata parameter to otu.association
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2012-05-23
Sarah Westcott
added design and sets parameters to the rarefaction...
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2012-05-22
Sarah Westcott
added debug output classify.seqs. worked on make.contig...
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2012-05-21
Sarah Westcott
added get.otulabels and remove.otulabels commands per...
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2012-05-18
Sarah Westcott
added threshold parameter to make.contigs command.
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2012-05-18
Sarah Westcott
Merge remote-tracking branch 'origin/master'
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2012-05-18
Sarah Westcott
added check to cluster.classic to make sure file type...
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2012-05-16
Kathryn Iverson
added check for numOTUS, will skip if < 2.
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2012-05-16
Kathryn Iverson
Merge branch 'master' of https://github.com/mothur...
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2012-05-16
Kathryn Iverson
updated output to include standard deviation
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2012-05-16
Kathryn Iverson
replaced p-value with zscore for lookup in ztable.
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2012-05-16
Sarah Westcott
added classic parameter to cluster.split. working...
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2012-05-15
Kathryn Iverson
added functions to calculate standard deviation and...
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2012-05-15
Sarah Westcott
added list.labels command. started work on make.contigs...
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2012-05-14
Sarah Westcott
last checkin for 1.25.1
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2012-05-14
Sarah Westcott
fixed bug in make.biom that occurred if some taxonomies...
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2012-05-14
Sarah Westcott
Merge remote-tracking branch 'origin/master'
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2012-05-14
Sarah Westcott
added debug info to engines function to get mother...
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2012-05-14
John Westcott
trying to clean up project files path issues
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2012-05-14
Pat Schloss
fixing pbxproj
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2012-05-14
Pat Schloss
Merge remote-tracking branch 'mothur/master'
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2012-05-14
Pat Schloss
small mods to sensspec command
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2012-05-11
Sarah Westcott
added some debug stuff to chimera.uchime. optimized...
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2012-05-11
Sarah Westcott
fixed path redirect issue in shhh.flows. optimized...
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2012-05-10
Sarah Westcott
fixed typos
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2012-05-10
Sarah Westcott
added abundance and sample parameters to get.coremicrob...
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2012-05-09
Sarah Westcott
working on get.coremicrobiom
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2012-05-09
John Westcott
Merge remote-tracking branch 'origin/master'
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2012-05-09
John Westcott
added debug flag to mothurOut. added debug parameter...
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2012-05-09
Sarah Westcott
cluster.split split method defaults to classify if...
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2012-05-02
Sarah Westcott
fixed segfault in unifrac with subsample. in progress...
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2012-05-02
Sarah Westcott
Revert to previous commit
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2012-05-02
Sarah Westcott
fixing
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2012-05-02
Sarah Westcott
moving source to source folder
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2012-05-02
Sarah Westcott
moved mothur's source into a folder to make grabbing...
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2012-05-02
Sarah Westcott
removing chime source files from mother project.
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2012-05-02
Sarah Westcott
another test
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2012-05-02
Sarah Westcott
test2
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2012-05-02
Sarah Westcott
test commit
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2012-05-01
John Westcott
commit test
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2012-05-01
Pat Schloss
Merge remote-tracking branch 'mothur/master'
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2012-05-01
Pat Schloss
fix rarefaction.single
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2012-05-01
Sarah Westcott
Merge remote-tracking branch 'mothur/master'
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2012-05-01
Sarah Westcott
bug in dist.shared and tree.shared with new subsampling...
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2012-05-01
Kathryn Iverson
fixed sim9 and trial_swap
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