Delila Program: lidel
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lidel program

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Documentation for the lidel program is below,
with links to related programs in the "see also" section.

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**{version = 1.30; (* of lidel.p 1995 July 14}
(* begin module describe.lidel *)
(*
name
lidel: convert coordinate list to Delila instructions
synopsis
lidel(fin: in, lidelp: in, inst: out, output: out)
files
fin: An input file of coordinates. Lines beginning with "*" are ignored by
being copied to the inst as comments. Two columns are required: the
piece name and the coordinate.
lidelp: parameters to control the program.
first line: 2 integers, range to use.
second line: piecol: column number of piece name
third line: datacol: column number of coordinate data
fourth line: title of book
fifth line: organism name
sixth line: chromosome name
seventh line: symmetry of instructions.
If the first character on the line is 'e' then even symmetry is used
and the center of the symmetry will lie between bases 0 and 1.
If the first character is 'e' then there are two possible ways that
the numbers in fin could be defined:
If the second character on the line is 'l' then the number in
fin is to the left (5') of the symmetry center.
If the second character on the line is 'r' then the number in
fin is to the right (3') of the symmetry center.
If the first character on the line is 'o' then odd symmetry is used
and the center of the symmetry will lie at base 0.
eighth line: number of instructions per integer in fin.
1: only one instruction is written.
2: two instructions are written: same as 1 and the complement
at the point of symmetry.
inst: Delila instructions which correspond to the locations in fin.
output: messages to the user
description
Frequently one has a list of coordinates that need to be converted
to Delila instructions.
examples
An example lidelp file:
-700 700 fromrange torange
1 column number of piece name
3 column number of coordinate data
CDS
Sacc.cerevisiae
Sacc.cerevisiae
er symmetry (e)ven or (o)dd, (l)eft or (r)ight
2 number of instructions to write to fin
parameters for lidel.p
documentation
see also
author
Thomas Dana Schneider
bugs
The coordinates given are for a location (0) and the complement (at 1)
this assumes that the point of symmetry is at 0.5; this must be generalized.
technical notes
*)
(* end module describe.lidel *)
{This manual page was created by makman 1.44}
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