We will be offering an R workshop December 18-20, 2019. Learn more.

Difference between revisions of "Count File"

From mothur
Jump to: navigation, search
Line 1: Line 1:
The count file is a condensed version of the name file.  It can also include the group information.  It can be created using the [[Count.seqs | make.table]] command.
+
The count file is a condensed version of the name file.  It can also include the group information.  It can be created using the [[Count.seqs | make.table]] command.  
 +
 
 +
'''NOTE: DO NOT use a hyphen in group names. The "-" character is used within mothur to separate group names, labels, taxonomies, ect. Including a hyphen will cause issues in your downstream analysis.'''
  
 
  Representative_Sequence total F003D000 F003D002 F003D004 F003D006 F003D008 ...
 
  Representative_Sequence total F003D000 F003D002 F003D004 F003D006 F003D008 ...

Revision as of 16:08, 16 May 2019

The count file is a condensed version of the name file. It can also include the group information. It can be created using the make.table command.

NOTE: DO NOT use a hyphen in group names. The "-" character is used within mothur to separate group names, labels, taxonomies, ect. Including a hyphen will cause issues in your downstream analysis.

Representative_Sequence	total	F003D000	F003D002	F003D004	F003D006	F003D008 ...
GQY1XT001C296C	6051	409	985	923	937	342 ...	
GQY1XT001A3TJI	4801	396	170	413	442	306 ...	
GQY1XT001CS2B8	3018	263	226	328	460	361 ...	
GQY1XT001CD9IB	2736	239	177	256	405	306 ...	
...

or if no group info was used to create it
 
Representative_Sequence	total	
GQY1XT001C296C	6051
GQY1XT001A3TJI	4801
GQY1XT001CS2B8	3018
GQY1XT001CD9IB	2736
GQY1XT001ARCB1	2183
GQY1XT001CNF2P	2796
GQY1XT001CJMDA	1667
GQY1XT001CBVJB	3758
...