This function applies specific filter criteria to
screen for LTR retrotransposons predicted by LTRpred
that are potentially able to transpose due to their sequence features.
filter.jumpers(LTRpred.tbl, ltr.similarity = 95, strategy = "conservative")
LTRpred.tbl | a |
---|---|
ltr.similarity | LTR similarity threshold. Default is |
strategy | filter strategy: either |
This ...
Filter strategy
conservative
:
liberal
:
between
:
Hajk-Georg Drost
if (FALSE) { # generate de novo LTR transposon prediction pred <- LTRpred(genome.file = "TAIR10_chr_all.fas", trnas = "plantRNA_Arabidopsis.fsa", hmms = "hmm_*") # detect potential jumpers filter.jumpers(pred) }