06-17-2010
Amazing! It worked like a charm!
Would it be possible to couple the pre-processing step? This is what I would like to do:
My input file (file A) contains the following information:
Quote:
> ID 1
ATGCTAGCTACGTCGTACGT
> ID 2
ACGCTGACGTAGCTA
> ID 3
ACTC
> ID 4
ACGCTGACGTAGCTA
> ID 5
ATGCTAGCTACGTCGTAC
> ID 6
AT
> ID 7
ATGCTAGCTACGTCGTAC
> ID 8
ATGCTAGCTACGTCGTAC
> ID 9
ATGCTAGCTACGTCGTAC
> ID 10
ACGCTGACGTAGCTA
> ID 11
ACGCTGACGTAGCTA
Now, I would like to create a file (file B) containing only the sequences with 5 or more characters but less than 18 with their corresponding ID an frequency, form my example above:
Quote:
> ID 2 Freq 3
ACGCTGACGTAGCTA
> ID 5 Freq 4
ATGCTAGCTACGTCGTAC
Then couple it with the code you mentioned above.
Would that be possible?
Thanks!
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BSFILT(1) General Commands Manual BSFILT(1)
NAME
bsfilt, colcrt - a colcrt-like backspace filter
SYNOPSIS
bsfilt [ - ] [ -U ] [ file ... ]
DESCRIPTION
Bsfilt filters backspace sequences from the input file(s) (standard input if none) in an approximation of colcrt(1). Both the backspace
and the character it returns to are removed, unless they form an underline sequence. Underline sequences are treated according to the set-
tings of the - and -U options.
OPTIONS
- specifies that no underlining of any kind is to be propagated. Without this option or the -U option, bsfilt approximates underlin-
ing with minus signs (`-') in following lines.
-U specifies that underlining with underscore (`_') and backspace (`) character sequences is permitted.
SEE ALSO
cawf(1), colcrt(1) and nroff(1).
DIAGNOSTICS
Diagnostic messages are delivered to the standard error file.
HISTORY
Vic Abell of Purdue University wrote bsfilt to have a backspace filter for cawf(1) that is independent of licensed source code.
BUGS
The maximum length of a line that can be underlined with minus signs is fixed.
Bsfilt does not examine the characters that are being overprinted via backspace operations. Thus, overprinting that is intended to form a
new character from several different ones is ineffective and only the last character of the sequence is propagated - e. g., ``o^H+'',
intended to look like a bullet, is reduced to `+'.
February, 1991 BSFILT(1)