Provided by: daligner_1.0+20151214-1_amd64 
NAME
LAshow - display local alignments from .las files
SYNOPSIS
LAshow [-caroUF] [-iint(4)] [-wint(100)][-bint(10)] src1:db|dam [src2:db|dam] align:las [reads:FILE | reads:range ... ]
DESCRIPTION
LAshow produces a printed listing of the local alignments contained in the specified .las file, where the
a- and b-reads come from src1 or from src1 and src2, respectively. If a file or list of read ranges is
given, then only the overlaps for which the a-read is in the set specified by the file or list are
displayed. See DBshow(1) for an explanation of how the file and list of read ranges are interpreted.
OPTIONS
-F Reverse the roles of the a- and b- reads in the display
-U Use uppercase for DNA sequence instead of the default lowercase
-iindentation
Set the indent for the cartoon and/or alignment displays if they are requested. (default: 4)
-bnum_symbols
Set the number of symbols on either side of the aligned segments in an alignment display.
(default: 10)
-ww This parameter is used for the display modes specified by -a and -r. (default: 100)
-o Only display alignments that are proper overlaps-- that is, where a sequence end occurs at each
end of the alignment
DISPLAY MODES
-c Cartoon rendering of the alignment
-a, -r Display an alignment of the local alignment
The -a option puts exactly w columns per segment of the display, whereas the -r option puts exactly w
a-read symbols in each segment of the display. The -r display mode is useful when one wants to visually
compare two alignments involving the same a-read. If a combination of the -c, -a, and -r flags is set,
then the cartoon comes first, then the -a alignment, and lastly the -r alignment.
SEE ALSO
daligner(1) LAsort(1) LAmerge(1) LAcat(1) LAsplit(1) LAcheck(1) HPCdaligner(1) HPCmapper(1)