| USEARCH manual > commands > maskfasta |
| maskfasta command |
| Masks sequences in a FASTA file. The ‑qmask masking option is used to specify the desired method. The ‑output option species the filename for the masked sequences. By default, soft masking is used (lower-case). The ‑hardmask option can be used to specify hard masking (Xs or Ns). Example usearch -maskfasta proteins.fasta -output
masked.fasta -qmask seg |