tRNAscan-SE Version 1
Scan a sequence file for tRNAs
Input Parameters
How to cite
Lowe, T.M. and Chan, P.P. (2016) tRNAscan-SE On-line: Search and Contextual Analysis of Transfer RNA Genes. Nucl. Acids Res. 44: W54-57.[PMID:4987944]
Help information
tRNAscan-SE

tRNAscan-SE 2.0

Usage: perl run_tRNAscan-SE.pl -i -seq_source -outdir -method -outprefix -struct -out_stats -outbed -outfasta 

INPUT:

-i                        [FILE]             genome sequence file genome.fa

-method             [STRING]

-seq_source      [STRING]

-out_structure                          whether save structure file

-out_stats                                whether save stats file

-out_bed                                  whether save bed file

-out_fasta                                whether save fasta file

OUTPUT:

-outdir                                     output directory                          


Parameters Description
-I Input file
genome sequence file genome.fa
-S Sequence source
sequence source
-P Output file prefix
output file prefix
-M Search method
search metnod
-O1 Output structure file
whether save structure file
-O2 Output stats file
whether save stats file
-O3 Output bed file
whether save bed file
-O4 Output fasta file
whether save sequence in fasta format
  • Strategic Priority Research Program of the Chinese Academy of Sciences,Grant No. XDB13000000
    Maintained by BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences.