Google
More docs on the ARB website.
See also index of helppages.
Last update on 25. Nov 2018 .
Main topics:
Related topics:

Merge Similar Species

OCCURRENCE

ARB_NT/Species/Merge Species/Create merged species from similar species

ARB_NT/Sequence/Concatenate Sequences/Alignments/MERGE SIMILAR SPECIES

 

DESCRIPTION

"Merge Similar Species" creates new species by merging fields and alignments of several similar species.

  • Mark all species that should be examined for similarity.
  • Select a database field entry by clicking on the first button to set a similarity-criterion used to detect candidates for merging (for e.g., full_name).
  • Specify the new field name to which the "number of merged species" information is to be stored (e.g., merged_species).
  • Press "Merge similar species ..." to start.

 

Merge and concatenate

From ´Concatenation of alignments/sequences´ you can access a special flavor of the "Merge similar species" function, that will also concatenate the selected alignments.

That version is useful after merging species of two (or more) independent databases, that contain different genes of the same organisms.

After merging you'll end up with data like:

name           "SpecExe1"
full_name      "Species exemplares"
ali_5s/data    "--AC--GU--"
name           "SpecAlt1"
full_name      "Species alternatio"
ali_5s/data    "--AU-GGC--"
name           "SpecExe2"
full_name      "Species exemplares"
ali_16s/data   "----U-A---G-C-----"
name           "SpecAlt2"
full_name      "Species alternatio"
ali_16s/data   "----G-A---UUC-----"

Using merge and concatenate with 'full_name' as similarity criterion, you can generate data like

name                 "SpecExe3"
full_name            "Species exemplares"
ali_5s_and_16s/data   "--AC--GU--XXX----U-A---G-C-----"
name                 "SpecAlt3"
full_name            "Species alternatio"
ali_5s_and_16s/data   "--AU-GGC--XXX----G-A---UUC-----"
 

NOTES

There's a second (older) function to merge species: see ´Join species´

 

EXAMPLES

None

 

WARNINGS

None

 

BUGS

No bugs known