Mercurial > repos > george-weingart > graphlan_import

changeset 56:96f335baf256 draft

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Uploaded
author george-weingart
date Sat, 06 Sep 2014 15:29:52 -0400
parents 5f8d50842c4f
children f9b9ad419acf
files import2graphlan.xml
diffstat 1 files changed, 7 insertions(+), 17 deletions(-) [+]
line wrap: on
line diff
--- a/import2graphlan.xml	Sat Sep 06 15:25:35 2014 -0400
+++ b/import2graphlan.xml	Sat Sep 06 15:29:52 2014 -0400
@@ -107,34 +107,24 @@
 
  * **Output of LEfSe**: This file is the result of LEfSe execute on the *Result of MetaPhlAn or HUMAnN analysis* file. This file allow GraPhlAn to highlight for you the found biomarkers.
 
-Input parameters1234
-====================
+Input parameters 
+================
  
     **--annotations** ANNOTATIONS List which levels should be annotated in the tree. Use a comma separate values form, e.g., -annotation_levels 1,2,3. Default is None
-
-
-
-
+ 
+ 
     **--external_annotations** EXTERNAL_ANNOTATIONS
-                        List which levels should use the external legend for the annotation. Use a comma separate values form,
-                        e.g., --annotation_levels 1,2,3. Default is None
-
-
+                        List which levels should use the external legend for the annotation. Use a comma separate values form, e.g., --annotation_levels 1,2,3. Default is None
 
 
     **--background_levels** BACKGROUND_LEVELS
-                        List which levels should be highlight with a shaded
-                        background. Use a comma separate values form, e.g.,
-                        --background_levels 1,2,3
+                        List which levels should be highlight with a shaded background. Use a comma separate values form, e.g.,--background_levels 1,2,3 
 
 
     **--background_clades** BACKGROUND_CLADES
                         Specify the clades that should be highlight with a  shaded background. Use a comma separate values form and surround the string with " if it contains spaces.
-                        Example: --background_clades "Bacteria.Actinobacteria,
-                        Bacteria.Bacteroidetes.Bacteroidia,
-                        Bacteria.Firmicutes.Clostridia.Clostridiales"
 
-
+                        Example: --background_clades "Bacteria.Actinobacteria,Bacteria.Bacteroidetes.Bacteroidia,Bacteria.Firmicutes.Clostridia.Clostridiales"
 
 
     **--background_colors** BACKGROUND_COLORS