Eponine#
Eponine is a probabilistic method for detecting transcription start sites (TSS)
API#
Eponine is a probabilistic method for detecting transcription start sites (TSS) in mammalian genomic sequence, with good specificity and excellent positional accuracy. .. rubric:: References
[5]
- ensembl.tools.anno.simple_feature_annotation.eponine.run_eponine(genome_file, output_dir, num_threads=1, java_bin=PosixPath('java'), eponine_bin=PosixPath('/hps/software/users/ensembl/ensw/C8-MAR21-sandybridge/linuxbrew/opt/eponine/libexec/eponine-scan.jar'), eponine_threshold=0.999, bedtools_bin='/hps/software/users/ensembl/ensw/C8-MAR21-sandybridge/linuxbrew/bin/bedtools')[source]#
- Run Eponine on genomic slices
- param genome_file:
Genome file path.
- param genome_file:
PathLike
- param output_dir:
Working directory path.
- param output_dir:
Path
- param java_bin:
Java path.
- param java_bin:
Path, default java
- param eponine_bin:
Eponine software path
- param eponine_bin:
Path
- param num_threads:
Number of threads.
- param num_threads:
int, default 1
- param eponine_threshold:
Eponine threashold.
- param eponine_threshold:
float, default 0.999
- param bedtools_bin:
Bedtools executable path.
- param bedtools_bin:
str, default “/hps/software/users/ensembl/ensw/C8-MAR21-sandybridge/linuxbrew/bin/bedtools”# pylint:disable=line-too-long
- return:
None
- rtype:
None