Description Usage Arguments See Also Examples
This function takes RepeatMasker annotation file as input and extracts the genomic location of each TE along with repeat class and family information. The output of rm_format() function is used while searching TEs that are located in the upstream region of the genes of interest. Repeat annotation files can be downloaded from http://www.repeatmasker.org/genomicDatasets/RMGenomicDatasets.html
1 | rm_format(filepath)
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filepath |
it is a character that refers directory of downloaded repeat file. |
1 2 | #Read and parse the RepeatMasker annotation file of interest.
TEffectR::rm_format(filepath="~/FilePath/hg38.fa.out.gz")
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