Predicts LTR retrotransposons using GenomeTools gt-ltrharvest utility
meta
:map
Groovy Map containing sample information e.g. [ id:'sample1' ]
[ id:'sample1' ]
index
:directory
Folder containing the suffixerator index files
suffixerator
tabout
*.tabout
:file
Old tabular output by default or when -tabout yes argument is present
-tabout yes
gff3
*.gff3
GFF3 output when -tabout no argument is present
-tabout no
fasta
$out_name
FASTA output when -out argument is present
-out
*.{fa,fsa,fasta}
inner_fasta
$outinner_name
FASTA output for inner regions when -outinner argument is present
-outinner
versions
versions.yml
File containing software versions
The GenomeTools genome analysis system
