NAME¶
lastdb - genome-scale comparison of biological sequences
SYNOPSIS¶
lastdb [
options]
output-name fasta-sequence-file(s)
DESCRIPTION¶
Prepare sequences for subsequent alignment with lastal.
Main Options:
-h: show all options and their default settings
-p:
interpret the sequences as proteins
-c: soft-mask lowercase letters
Advanced Options (default settings):
-Q: input format: 0=fasta,
1=fastq-sanger, 2=fastq-solexa, 3=fastq-illumina (0)
-s: volume size
(unlimited)
-m: spaced seed pattern
-u: subset seed file
(yass.seed)
-w: index step (1)
-a: user-defined alphabet
-b: bucket depth
-x: just count sequences and letters
-v:
be verbose: write messages about what lastdb is doing
REPORTING BUGS¶
Report bugs to: last (ATmark) cbrc (dot) jp
LAST home page:
http://last.cbrc.jp/