tRNAscan-Se¶

Description¶

tRNAscan-SE predicts tRNA genes from input DNA or RNA sequences in FASTA format. tRNA predictions are output in standard tabular format, secondary structure file, FASTA file, BED file, and GTF file.

Environment Modules¶

Run module spider trnascan-se to find out what environment modules are available for this application.

Environment Variables¶

HPC_TRNASCANSE_DIR - installation directory
HPC_TRNASCANSE_BIN - executable directory

Citation¶

If you publish research that uses trnascan-se you have to cite it as follows:

Lowe, T. M., & Chan, P. P. (2016). tRNAscan-SE On-line: Search and Contextual Analysis of Transfer RNA Genes. Nucleic Acids Research, 44(W1), W54-W57. https://doi.org/10.1093/nar/gkw413

Chan, P. P., & Lowe, T. M. (2019). tRNAscan-SE: Searching for tRNA Genes in Genomic Sequences. In M. Kollmar (Ed.), Gene Prediction: Methods and Protocols (pp. 1-14). Springer. https://doi.org/10.1007/978-1-4939-9173-0_1

Categories¶

biology, genomics, annotation