table of contents
other versions
- bookworm 1.6.2+ds-3
- bookworm-backports 1.6.5+ds-2~bpo12+1
- testing 1.6.5+ds-2.2
- unstable 1.6.5+ds-2.2
| GT-ENCSEQ-DECODE(1) | GenomeTools Manual | GT-ENCSEQ-DECODE(1) |
NAME¶
gt-encseq-decode - Decode/extract encoded sequences.
SYNOPSIS¶
gt encseq decode (sequence_file|indexname)
DESCRIPTION¶
-mirrored [yes|no]
virtually append the reverse complement of each sequence
(default: no)
-lossless [yes|no]
allow lossless original sequence retrieval (default:
no)
-dir [string]
specify reading direction (fwd, cpl, rev, rcl) (default:
fwd)
-singlechars [yes|no]
do not use a GtEncseqReader but access each sequence
character separately (default: no)
-seq [value]
extract sequence identified by its number (default:
undefined)
-seqrange [start end]
extract multiple consecutive sequences (default:
undefined)
-output [...]
specify output format (choose from fasta|concat)
(default: fasta)
-range [start end]
concatenated range to extract (implies -output
concat) (default: undefined)
-sepchar [string]
specify character to print as GT_SEPARATOR (default:
|)
-help
display help for basic options and exit
-help+
display help for all options and exit
-version
display version information and exit
REPORTING BUGS¶
Report bugs to https://github.com/genometools/genometools/issues.
| 01/31/2024 | GenomeTools 1.6.5 |