Multiple Sequence Alignment

This protocol performs a multiple sequence alignment (MSA) over a set of input sequences. The alignment can be performed using either Clustal Omega, Muscle or Mafft, which are automatically installed in the scipion-chem plugin. Additional parameters for each of the programs can be manually input.

Input

Note

All parameters include a help button that gives further information for each of them.

Multiple Sequence Alignment form

The result of this protocol is a SetOfSequences with the two input sequences aligned.

Multiple Sequence Alignment output

Test

This protocol has an integrated test that can be run using the following command:

scipion3 tests pwchem.tests.tests_sequences.TestMultipleAlignSequences