tag:github.com,2008:https://github.com/gavinmdouglas/FuncDiv/releases 2023-03-07T16:26:17Z tag:github.com,2008:Repository/490072333/v1.0.0 2023-03-08T22:27:18Z <ul> <li> <p><strong>Changed UniFrac implementation to be based on <code>rbiom</code> rather than <code>phyloseq</code></strong>, due to the issues described in <a class="issue-link js-issue-link" data-error-text="Failed to load title" data-id="1574904618" data-permission-text="Title is private" data-url="https://github.com/gavinmdouglas/FuncDiv/issues/2" data-hovercard-type="issue" data-hovercard-url="/gavinmdouglas/FuncDiv/issues/2/hovercard" href="https://github.com/gavinmdouglas/FuncDiv/issues/2">#2</a>. This means that the weighted UniFrac values are now different than in earlier versions, due to this change. These values should now agree better with how QIIME 2 calculates weighted UniFrac distances.</p> </li> <li> <p><code>RcppParallel</code> is now linked to an import due to this new dependency (the relevant code from v1.0.3 of <code>rbiom</code> is now packaged in <code>FuncDiv</code> after some minor modification in <code>R/beta_workflow.R</code> and <code>src/rbiom_par_unifrac.cpp</code> (the latter file is unchanged).</p> </li> <li> <p>Changed fishers_alpha calculation to return NA rather than 0 if it cannot fit a model. Also added a parameter for the minimum number of unique classes needed before fitting, which is set to 10 by default.</p> </li> <li> <p>Otherwise the recent changes are minor typo fixes and changes needed to follow all CRAN submission policies.</p> </li> </ul> gavinmdouglas tag:github.com,2008:Repository/490072333/v0.4.2 2022-11-21T14:30:46Z <ul> <li> <p>Specify that <code>parDist</code> should be single-threaded when called</p> </li> <li> <p>Add checks for when only 1 sample / taxon input to UniFrac</p> </li> <li> <p>Typo where <code>mc.cores</code> was always == 10 under one condition</p> </li> <li> <p>Remove rows with 0/NA abundance in contrib_tab</p> </li> </ul> gavinmdouglas tag:github.com,2008:Repository/490072333/v0.4.1 2023-04-12T19:41:11Z <p>Hot-fix for issue in DESCRIPTION file that caused installation problems in last release.</p> gavinmdouglas tag:github.com,2008:Repository/490072333/v0.4 2022-11-03T15:59:15Z <p>Minor fixes and now include weighted/unweighted UniFrac and Jensen-Shannon Divergence as beta diversity options.</p> gavinmdouglas tag:github.com,2008:Repository/490072333/v0.2 2022-08-05T16:00:47Z <p>Initial beta release</p> gavinmdouglas