Trnascan#
tRNAscan-SE identifies 99-100% of transfer RNA genes in DNA sequence while
API#
tRNAscan-SE identifies 99-100% of transfer RNA genes in DNA sequence while giving less than one false positive per 15 gigabases. .. rubric:: References
[7]
- ensembl.tools.anno.snc_rna_annotation.trnascan.run_trnascan(genome_file, output_dir, trnascan_bin=PosixPath('tRNAscan-SE'), trnascan_filter=PosixPath('EukHighConfidenceFilter'), num_threads=1, bedtools_path='/hps/software/users/ensembl/ensw/C8-MAR21-sandybridge/linuxbrew/bin/bedtools')[source]#
- Executes tRNAscan-SE on genomic slices
- param genome_file:
Genome file path.
- type genome_file:
PathLike
- param output_dir:
working directory path.
- type output_dir:
Path
- param trnascan_bin:
tRNAscan-SE software path.
- type trnascan_bin:
Path, default tRNAscan-SE
- param trnascan_filter:
tRNAscan-SE filter set path.
- type trnascan_filter:
Path, default EukHighConfidenceFilter
- param num_threads:
int, number of threads.
- type num_threads:
int, default 1
- param bedtools_path:
Bedtools executable path.
- type bedtools_path:
str, default “/hps/software/users/ensembl/ensw/C8-MAR21-sandybridge/linuxbrew/bin/bedtools”#pylint:disable=line-too-long
- return:
None
- rtype:
None