Man page - lastdb(1)

Packages contains this manual

Package:  last-align
apt-get install last-align

Manuals in package:
• maf-cut(1)
• lastdb(1)
• last-train(1)
• last-pair-probs(1)
• last-merge-batches(1)
• maf-join(1)
• lastal(1)
• fasta-nr(1)
• maf-swap(1)
• last-map-probs(1)
• maf-convert(1)
• last-postmask(1)
• fastq-interleave(1)
• maf-sort(1)
• last-split(1)
• last-dotplot(1)
Documentations in package:
• last-align

Manual

LASTDB

NAME
SYNOPSIS
DESCRIPTION
OPTIONS
Main Options
Advanced Options (default settings)
REPORTING BUGS

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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.

OPTIONS

Main Options

-h , --help

show all options and their default settings, and exit

	-p		interpret the sequences as proteins
	-R		repeat-marking options (default=10)
	-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		seed pattern (non-DNA: 1)
	-u		seeding scheme (DNA: YASS)
	-w		index step (1)
	-a		user-defined alphabet
	-i		minimum limit on initial matches per query position (0)
	-b		bucket depth
	-C		child table type: 0=none, 1=byte-size, 2=short-size, 3=full (0)
	-x		just count sequences and letters
	-v		be verbose: write messages about what lastdb is doing

-V , --version

show version information, and exit

REPORTING BUGS

Report bugs to: last-align@googlegroups.com
LAST home page: http://last.cbrc.jp/

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