MSA Refinement
Refine MSA application.
-
evol_refine(msa, **kwargs)[source]
Refine an MSA by removing gapped rows/colums.
Parameters: | msa – MSA filename to be refined |
Refinement Options
Parameters: |
- label (str) – sequence label, UniProt ID code, or PDB and chain
identifier
- seqid (float) – identity threshold for selecting unique sequences
- colocc (float) – column (residue position) occupancy
- rowocc (float) – row (sequence) occupancy
- pdbres (bool) – keep columns corresponding to residues not resolved in
PDB structure, applies label argument is a PDB identifier
|
Output Options
Parameters: |
- outname (str) – output filename, default is msa filename with _refined
suffix
- format (str) – output MSA file format, default is same as input
- compressed (bool) – gzip refined MSA output
|