Mercurial > repos > jjohnson > mothur_toolsuite
diff mothur/tools/mothur/tree.shared.xml @ 19:d86987601022
Move calc options in individual tools and remove tool-data/mothur_calculators.loc
author | Jim Johnson <jj@umn.edu> |
---|---|
date | Tue, 17 Jan 2012 14:16:44 -0600 |
parents | 7bfe1f843858 |
children | ed906f8149bb |
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--- a/mothur/tools/mothur/tree.shared.xml Tue Jan 17 11:22:44 2012 -0600 +++ b/mothur/tools/mothur/tree.shared.xml Tue Jan 17 14:16:44 2012 -0600 @@ -71,12 +71,46 @@ </when> </conditional> <param name="calc" type="select" label="calc - Calculators (Uses defaults if none selected)" multiple="true"> - <options from_file="mothur_calculators.loc"> - <column name="mult2" index="2"/> - <column name="name" index="0"/> - <column name="value" index="0"/> - <filter type="static_value" name="mult2" column="2" value="shar" /> - </options> + <option value="sharedsobs">sharedsobs - Shared community richness the observed richness shared between two or more samples</option> + <option value="sharedchao">sharedchao - Shared community richness the two or more sample shared Chao1 richness estimator</option> + <option value="sharedace">sharedace - Shared community richness the two sample shared ACE richness estimator</option> + <option value="anderberg">anderberg - Community Membership Similarity the Anderberg similarity coefficient</option> + <option value="jclass" selected="true">jclass - Community Membership Similarity the traditional Jaccard similarity coefficient based on the observed richness</option> + <option value="jest">jest - Community Membership Similarity the Jaccard similarity coefficient based on the Chao1 estimated richnesses</option> + <option value="kulczynski">kulczynski - Community Membership Similarity the Kulczynski similarity coefficient</option> + <option value="kulczynskicody">kulczynskicody - Community Membership Similarity the Kulczynski-Cody similarity coefficient</option> + <option value="kstest">kstest - Community Membership Similarity Kolmogorov-Smirnov test</option> + <option value="lennon">lennon - Community Membership Similarity the Lennon similarity coefficient</option> + <option value="ochiai">ochiai - Community Membership Similarity the Ochiai similarity coefficient</option> + <option value="sorclass">sorclass - Community Membership Similarity the Sorenson similarity coefficient based on the observed richness</option> + <option value="sorest">sorest - Community Membership Similarity the Sorenson similarity coefficient based on the Chao1 estimated richnesses</option> + <option value="whittaker">whittaker - Community Membership Similarity the Whittaker similarity coefficient</option> + <option value="hamming">hamming - Community Membership Similarity -</option> + <option value="memchi2">memchi2 - Community Membership Similarity -</option> + <option value="memchord">memchord - Community Membership Similarity -</option> + <option value="memeuclidean">memeuclidean - Community Membership Similarity -</option> + <option value="mempearson">mempearson - Community Membership Similarity -</option> + <option value="braycurtis">braycurtis - Community Structure Similarity the Bray-Curtis similarity coefficient</option> + <option value="jabund">jabund - Community Structure Similarity the abundance-based Jaccard similarity coefficient</option> + <option value="morisitahorn">morisitahorn - Community Structure Similarity the Morisita-Horn similarity coefficient</option> + <option value="sorabund">sorabund - Community Structure Similarity the abundance-based Sorenson similarity coefficient</option> + <option value="thetan">thetan - Community Structure Similarity the Smith theta similarity coefficient</option> + <option value="thetayc" selected="true">thetayc - Community Structure Similarity the Yue & Clayton theta similarity coefficient</option> + <option value="canberra">canberra - Community Structure Similarity -</option> + <option value="gower">gower - Community Structure Similarity -</option> + <option value="hellinger">hellinger - Community Structure Similarity -</option> + <option value="manhattan">manhattan - Community Structure Similarity -</option> + <option value="odum">odum - Community Structure Similarity -</option> + <option value="soergel">soergel - Community Structure Similarity -</option> + <option value="spearman">spearman - Community Structure Similarity -</option> + <option value="speciesprofile">speciesprofile - Community Structure Similarity -</option> + <option value="structchi2">structchi2 - Community Structure Similarity -</option> + <option value="structchord">structchord - Community Structure Similarity -</option> + <option value="structeuclidean">structeuclidean - Community Structure Similarity -</option> + <option value="structkulczynski">structkulczynski - Community Structure Similarity -</option> + <option value="structpearson">structpearson - Community Structure Similarity -</option> + <option value="sharednseqs">sharednseqs - Utility the number of sequences in two samples</option> + <option value="sharedobserved">sharedobserved - Utility the number of sequences in two samples</option> </param> </inputs> <outputs>