grunwaldlab/metacoder

Issues

• Error with parse_tax_data and installation issues

  #334 opened 3 years ago by zachary-foster
  11

• Exclude labels of lowest taxon_rank

  #367 opened a month ago by fionnualabulman
  1

• Coloring of branches based on different groups (taxa detection by 12S, 16S gene regions)

  #366 opened 2 months ago by Meng-OY
  0

• Running into error when plotting alpha diversity indexes

  #365 opened 3 months ago by ChathuZ
  1

• Using ANCOM-BC2 for DA analysis

  #364 opened 4 months ago by scilexenko
  0

• Error in layout$fun(graph = list(1598, TRUE, c(0, 0, 0, 0, 0, 0, 0, 0, : At rinterface_extra.c:82 : The value 10.642051692927977 is not representable as an integer. Invalid value

  #362 opened 9 months ago by dhadsell
  7

• italicize node labels?

  #345 opened 2 years ago by taylorreiter
  2

• This code crashes RStudio

  #339 opened 8 months ago by zachary-foster
  2

• Another Error in running alpha diversity analysis

  #363 opened 8 months ago by mcddna
  1

• How to increase the text size for lineage names in heat_tree

  #315 opened 3 years ago by biosciences
  4

• Error: 'filter_taxa' is not an exported object from 'namespace:taxa'

  #361 opened 9 months ago by dhadsell
  4

• Run heat_tree with result of differential abundance analysis

  #355 opened 10 months ago by Paoluxxe
  9

• Error for running alpha diversity analysis

  #316 opened a year ago by biosciences
  8

• Problem with own dataset

  #360 opened a year ago by lfenske-93
  6

• Relative abundance in heat tree

  #357 opened a year ago by SimonMorvan
  4

• Phyloseq heat tree doesn't see taxon_id or supertaxon_id when trying filter_taxa?

  #359 opened a year ago by hank00000
  9

• how to get access to the Taxmap dataframe ?

  #358 opened a year ago by mariabernard
  1

• Getting incorrectly formated results with zero_low_counts

  #356 opened a year ago by dhadsell
  4

• Error in filter_taxa(x, per_taxon_max_change > 2.5, supertaxa = TRUE, : unused arguments

  #354 opened a year ago by Low-Maple
  3

• Keep only differentially abundant taxa in heat_tree()

  #353 opened a year ago by SimonMorvan
  1

• Help with metacoder: Displaying a simplified heat tree for four taxonomic levels

  #352 opened a year ago by Wengen-Zhu
  0

• calc_diff_abund_deseq2, linear variables and "design"?

  #351 opened a year ago by msolbach
  3

• Creation of different heat trees by treatments definded in sample data file

  #350 opened a year ago by kazpa-kay
  0

• primersearch_raw swaps position of forward and reverse primers.

  #349 opened a year ago by omarkr8
  1

• Color nodes according to correlation between relative abundance and external variables

  #340 opened 2 years ago by jpcasasruiz
  5

• Filter_taxa issue (No "taxon_id" column in the data set "3", so there are no taxon IDs)

  #342 opened 2 years ago by SimonMorvan
  1

• parse_phyloseq issues

  #348 opened 2 years ago by jmoscosonunez
  2

• Export p-values with heircachy amd taxanomic names?

  #330 opened 3 years ago by catherineel
  2

• ggtext compatibility

  #347 opened 2 years ago by Gian77
  2

• Error in grid.Call.graphics(C_setviewport, vp, TRUE) : non-finite location and/or size for viewport

  #328 opened 2 years ago by tboonf
  12

• Can we use a uniform color scale in different figs?

  #344 opened 2 years ago by durubing-jn
  2

• as_phyloseq error

  #343 opened 2 years ago by DanielSoutoV
  5

• Error in repel_boxes(data_points = as.matrix(text_data[movable, c("x", : std::bad_alloc

  #338 opened 2 years ago by zachary-foster
  0

• deseq2 branch

  #325 opened 3 years ago by sghignone
  4

• metacoder with MetagenomeSeq

  #335 opened 3 years ago by acpaulo
  5

• Figure readability for publication?

  #336 opened 3 years ago by hbbshulman
  1

• Failure when installing metacoder in RStudio in both windows and Ubuntu 20.04

  #333 opened 3 years ago by emankhalaf
  2

• Confusion about filter_taxa and filter_obs

  #332 opened 3 years ago by levlitichev
  3

• The taxon list table for the differential heat tree

  #317 opened 3 years ago by biosciences
  6

• Update example data format

  #331 opened 3 years ago by zachary-foster
  0

• Alpha-diversity assessed by richness (Chao1, ACE)

  #329 opened 3 years ago by biosciences
  2

• Adding Relative Abundance as node size and color

  #327 opened 3 years ago by DarynaP
  4

• Error in names vector length using primersearch_raw

  #326 opened 3 years ago by rogmei
  3

• How to filter non-significant odd named taxa, and only keep the significant odd named taxa?

  #324 opened 3 years ago by catherineel
  8

• Customize sample order heat_tree_matrix?

  #323 opened 3 years ago by LunavdL
  5

• rarefy_obs seems to be removing all my samples?

  #322 opened 3 years ago by anonymouslichen
  1

• Metabolic pathway packages/script recommendations

  #321 opened 3 years ago by catherineel
  4

• Does removing low-abundance counts completely remove them from pairwise comparisons?

  #319 opened 3 years ago by catherineel
  5

• How to filter taxa in heat tree matrix?

  #320 opened 3 years ago by catherineel
  1

• The heat tree for common species

  #318 opened 3 years ago by biosciences
  1