biocore/gneiss

Issues

• Numpy 1.24 incompatibility

  #298 opened 2 years ago by mortonjt
  0

• ImportError: cannot import name 'balanceplot'

  #296 opened 3 years ago by Learnerhua
  2

• ImportError: cannot import name 'balanceplot'

  #261 opened 3 years ago by jolespin
  3

• match and match_tips functions are deprecated

  #295 opened 3 years ago by mortonjt
  0

• BUG: match appears to be broken with biom tables

  #290 opened 3 years ago by mortonjt
  0

• Faster hierarchical clustering

  #294 opened 3 years ago by mortonjt
  0

• Renaming clades

  #289 opened 4 years ago by mortonjt
  1

• Compatiability with xarray

  #287 opened 4 years ago by mortonjt
  0

• Faster random_linkage method

  #286 opened 4 years ago by mortonjt
  0

• Proportionality test

  #285 opened 4 years ago by mortonjt
  1

• Balance test

  #281 opened 5 years ago by mortonjt
  1

• Tutorials for proportion plots

  #284 opened 5 years ago by mortonjt
  0

• Update the pip and bioconda version 0.4.4 to require skbio ≥ 0.5.1 instead of == 0.5.1

  #277 opened 5 years ago by jolespin
  3

• phyloseq support

  #276 opened 5 years ago by davidvilanova
  1

• numerator cutoff is slightly off in proportion_plot

  #275 opened 6 years ago by mortonjt
  2

• pvalues disagree between interactive plot

  #274 opened 6 years ago by mortonjt
  0

• Sign change in ilr_transform results using new dependencies

  #270 opened 6 years ago by thermokarst
  3

• Getting None/NaN values in columns from `gneiss.composition.ilr_transform`

  #269 opened 6 years ago by jolespin
  2

• TODO:

  #264 opened 6 years ago by mortonjt
  0

• Missing documentation for latest release

  #252 opened 7 years ago by ElDeveloper
  1

• Gneiss Maximum Recursion Depth Error

  #263 opened 6 years ago by mortonjt
  0

• [Question] How to correctly use ILR with balance tree basis?

  #262 opened 6 years ago by mortonjt
  5

• Tight integration with patsy

  #260 opened 7 years ago by mortonjt
  0

• problem with balance labels in lme regression?

  #251 opened 7 years ago by tanaes
  0

• Expose all formulas in the mixed effects models

  #248 opened 7 years ago by mortonjt
  0

• data available for gneiss python tutorials?

  #247 opened 7 years ago by VivyanCyril
  1

• Proportion plot offset

  #246 opened 7 years ago by mortonjt
  0

• Make sure the ordering is fixed in balance_barplots

  #245 opened 7 years ago by mortonjt
  0

• Need a sample / feature palette for the proportion_plots

  #244 opened 7 years ago by mortonjt
  0

• Release cycle agenda

  #243 opened 7 years ago by mortonjt
  0

• Adding FDR values for download

  #240 opened 7 years ago by mortonjt
  1

• More intuitive errors / checking

  #242 opened 7 years ago by mortonjt
  1

• proportion plots

  #233 opened 7 years ago by mortonjt
  1

• Enable workflows

  #241 opened 7 years ago by mortonjt
  0

• Residuals for specific covariates

  #239 opened 7 years ago by mortonjt
  0

• heat maps are not centered in white

  #236 opened 7 years ago by antgonza
  0

• confusing colors in projected projections

  #235 opened 7 years ago by antgonza
  0

• Need random states

  #232 opened 7 years ago by mortonjt
  0

• Heatmaps are a tad off

  #231 opened 7 years ago by mortonjt
  0

• scikit-learn refactor

  #225 opened 7 years ago by mortonjt
  0

• Refactor regression summary

  #230 opened 7 years ago by mortonjt
  0

• Add in utility method for subsetting

  #229 opened 7 years ago by mortonjt
  0

• Better residual analysis

  #228 opened 7 years ago by mortonjt
  0

• Matrix completion

  #227 opened 7 years ago by mortonjt
  0

• Replace pandas dataframes with xarray

  #226 opened 7 years ago by mortonjt
  0

• Better APIs for summarizing taxa

  #224 opened 7 years ago by mortonjt
  0

• Improved Ward clustering

  #223 opened 7 years ago by mortonjt
  0

• Add in robustness parameter to heatmaps

  #222 opened 7 years ago by mortonjt
  0

• Regression modules need to accept tree as input

  #217 opened 7 years ago by mortonjt
  0

• Bayesian Regression

  #218 opened 7 years ago by mortonjt
  0