NAME

       EukHighConfidenceFilter - detection of transfer RNA genes in genomic sequence

SYNOPSIS

       EukQualityFilter [options]

DESCRIPTION

       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                  Print this help

AUTHOR

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