Warning: The command-line version of this software tool was not originally developed for public consumption, and output formats may not be in a friendly human-readable format. Command-line version is provided here to allow interested parties who may find interest in utilizing the command-line version rather than relying on the web-based server.
CRISPRone provides annotation of CRISPR—Cas systems including:
- CRISPR arrays of repeat-spacer units, and cas genes
- type (and subtype) of predicted system(s)
- anti-repeats (part of tracrRNA genes in type II CRISPR–Cas systems)
Dependencies required to be installed prior to running CRISPRone.
- Python 2.7+ OR Python 3.6+
- Perl
usage: crisprone-local.py [output-base] [output-prefix] [input-fna] <input-gff>
required arguments:
[output-base] Output directory for CRISPRone results.
[output-prefix] Prefix/label for output subdirectories and output files.
[intput-fna] Path to input FASTA file.
optional arguments:
<input-gff> Path to GFF file of intput FASTA file.
| output file | Description |
|---|---|
| output.crt | metaCRT output of identified CRISPRs. |
| output-sm.gff | GFF of CRISPR-Cas related features. |
| output.plot.spacer | metadata of CRISPR-Cas related features. |
| /spacer/all-spacer.fa | FASTA file of all identified CRISPR spacer sequences. |
This work was supported by NSF grants DBI-0845685 & DBI-1262588