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Difference between revisions of "Mothur v.1.3.0"

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(Bug fixes)
(Major updates)
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* [[seq.filter]] - Remove select columns from an alignment by removing any column that has a specific character in it, a minimum base frequency, or a user-supplied filter
 
* [[seq.filter]] - Remove select columns from an alignment by removing any column that has a specific character in it, a minimum base frequency, or a user-supplied filter
 
* [[dist.seqs]] - Generate pairwise distance matrix in column format
 
* [[dist.seqs]] - Generate pairwise distance matrix in column format
 +
* [[dist.shared]]
 
* [[tree.shared]] - Generate a newick-formatted tree file comparing the membership or structure of multiple communities
 
* [[tree.shared]] - Generate a newick-formatted tree file comparing the membership or structure of multiple communities
 
+
* [[get.repseqs]]
  
 
* '''Calculators'''
 
* '''Calculators'''
 
**Shared Chao1 richness estimator for N≥2; incorporated into calculating 3- and 4-way Venn diagrams
 
**Shared Chao1 richness estimator for N≥2; incorporated into calculating 3- and 4-way Venn diagrams
 
  
 
==Bug fixes==
 
==Bug fixes==

Revision as of 13:23, 21 May 2009

Minor updates

Major updates

  • seq.filter - Remove select columns from an alignment by removing any column that has a specific character in it, a minimum base frequency, or a user-supplied filter
  • dist.seqs - Generate pairwise distance matrix in column format
  • dist.shared
  • tree.shared - Generate a newick-formatted tree file comparing the membership or structure of multiple communities
  • get.repseqs
  • Calculators
    • Shared Chao1 richness estimator for N≥2; incorporated into calculating 3- and 4-way Venn diagrams

Bug fixes

  • Got rid of weird output to screen when running collect.single() or using the npshannon calculator
  • Fixed bug that would not permit freq=1
  • Fixed file error with rarefaction.single() and rarefaction.shared()