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CHANGELOG.md

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gneiss changelog

Version 0.4.5

  • Pandas dependencies have been updated #282

Version 0.4.4

  • Numpy and scikit-bio dependencies have been updated #278

Version 0.4.3

  • Enabling direct download of fdr corrected pvalues
  • Adding in sparse version of the ilr transform utilizing COO-formated sparse matrices #250
  • Adding in sparse utilities for matching biom tables #253

Version 0.4.2

  • Added proportion_plot to plot the mean proportions within a single balance #234

Version 0.4.1

  • Added colorbar for heatmap
  • Decoupled qiime2 from gneiss. All qiime2 commands have now been ported to q2-gneiss

Version 0.4.0

  • Accelerated the ordinary least squares regression
  • Improved summary statistics and cross validation in ordinary least squares regression
  • Improved summary visualizations for OLS and MixedLM

Version 0.3.2

  • Added balance_boxplot and balance_barplot to make interpretation balance partitions easier.
  • Added balance_summary to summarize a given balance using the q2 cli.
  • Added assign_ids command to allow for ids to be added manually.

Version 0.3.0

  • Added q2 support for linear regression and linear mixed effects models #98
  • Added q2 support hierarchical clustering #116
  • Added interactive heatmaps with highlights with matplotlib #114
  • Added tree visualizations for unrooted trees with bokeh #112
  • Added support of cross validation for ordinary least squares #101

Version 0.2.1

  • Added heatmap dendrogram plotting functionality #87
  • Added principal balance analysis heuristic using proportionality and wards clustering algorithm #83

Version 0.2.0

Features

  • Added filehandle support for write and read io in RegressionResults object #77

Version 0.1.3

Features

  • Added write and read io for RegressionResults object #72

Version 0.1.2

Features

  • Added ladderize and gradient_sort #29

Bug fixes

Version 0.0.2

Features

  • Added statsmodels inference #22
  • Added support for ordinary least squares regression #33
  • Added support for linear mixed effects models #38
  • Added RegressionResults object to summarize statistics from statistical analyses
  • Adding in a niche sorting algorithm gneiss.sort.niche_sort that can generate a band table given a gradient #16
  • Adding in utility functions for handing feature tables, metadata, and trees. #12
  • Adding GPL license.

Bug fixes