## Metagenomics / Customize the reference with Mothur

### Description

Customize your region of interest from the Silva reference sequence.

### Parameters

- Start (Integer) []
- End (Integer)) []
- Remove leading and trailing dots (yes, no) [no]

### Details

You can customize the Silva reference sequence with this tool if you know the starting point and ending point of your region of interest. You can choose to remove or choose to keep the leading and trailing dots.

This tool is based on the pcr.seqs command of the Mothur package.

### Output

The analysis output consists of the following:

- custom.reference.fasta: A FASTA-formatted sequence file for the customized reference.
- custom.reference.summary.tsv: Summary statistics for the sequences

### References

Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, Hollister EB, Lesniewski RA, Oakley BB, Parks DH, Robinson CJ, Sahl JW, Stres B, Thallinger GG, Van Horn DJ, Weber CF. Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.