EukHighConfidenceFilter - detection of transfer RNA genes in genomic sequence

        This manpage was written by Nilesh Patra for the Debian distribution and
        can be used for any other usage of the program.

EukHighConfidenceFilter 2.0.9+ds                    July 2021                         EUKHIGHCONFIDENCEFILTER(1)

       Options   --result-i   <file>           tRNAscan-SE   output   file  used  as  input  --ss-s  <file>
       tRNAscan-SE secondary structure file used as input --output-o  <file  path>     Directory  where  output
       files   will   be   written   --prefix-p  <name>          Prefix  for  output  file  name  --remove-r
       Remove  filtered  tRNA  hits  (default:  filtered  tRNA  hits  are  only  tagged)  --cmscore1-c1  <num>
       Domain-specific  model  score cutoff for secondary filtering (default = 50; -1 if not used for filtering)
       --ssscore1-m1 <num>       Secondary structure score cutoff for secondary filtering (default = 10; -1  if
       not  used  for  filtering)  --isoscore1-e1 <num>      Isotype-specific model score cutoff for secondary
       filtering (default = 70; -1 if not used for filtering) --isoscore2-e2 <num>      Isotype-specific  model
       starting  score cutoff for tertiary filtering (default = 70; -1 if not used for filtering) --isomaxscore2-x <num>    Maximum isotype-specific model score cutoff for tertiary filtering (default = 95)  --help-h
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       EukHighConfidenceFilter - detection of transfer RNA genes in genomic sequence

EukQualityFilter [options]