Provided by: genometools_1.6.2+ds-3_amd64
NAME
gt-encseq-encode - Encode sequence files (FASTA/FASTQ, GenBank, EMBL) efficiently.
SYNOPSIS
gt encseq encode sequence_file [sequence_file [sequence_file ...]]
DESCRIPTION
-showstats [yes|no] show compression results (default: no) -ssp [yes|no] output sequence separator positions to file (default: yes) -des [yes|no] output sequence descriptions to file (default: yes) -sds [yes|no] output sequence description separator positions to file (default: yes) -md5 [yes|no] output MD5 sums to file (default: yes) -clipdesc [yes|no] clip descriptions after first whitespace (default: no) -sat [string] specify kind of sequence representation by one of the keywords direct, bytecompress, eqlen, bit, uchar, ushort, uint32 (default: undefined) -dna [yes|no] input is DNA sequence (default: no) -protein [yes|no] input is protein sequence (default: no) -plain [yes|no] process as plain text (default: no) -dust [yes|no] mask low-complexity regions using the dust algorithm (default: no) -dustwindow [value] windowsize for the dust algorithm (default: 64) -dustthreshold [value] threshold for the dust algorithm (default: 2.000000) -dustlink [value] Max. distance between regions masked by dust before merging. (default: 1) -indexname [string] specify name for index to be generated (default: undefined) -smap [string] specify file containing a symbol mapping (default: undefined) -lossless [yes|no] allow lossless original sequence retrieval (default: no) -v [yes|no] be verbose (default: no) -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.