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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LEARN ABOUT REDHAT
uuencode
UUENCODE(5) File Formats Manual UUENCODE(5)
NAME
uuencode - format of an encoded uuencode file
DESCRIPTION
Files output by uuencode(1) consist of a header line, followed by a number of body lines, and a trailer line. The uudecode(1) command will
ignore any lines preceding the header or following the trailer. Lines preceding a header must not, of course, look like a header.
The header line is distinguished by having the first 6 characters begin The word begin is followed by a mode (in octal), and a string
which names the remote file. A space separates the three items in the header line.
The body consists of a number of lines, each at most 62 characters long (including the trailing newline). These consist of a character
count, followed by encoded characters, followed by a newline. The character count is a single printing character, and represents an inte-
ger, the number of bytes the rest of the line represents. Such integers are always in the range from 0 to 63 and can be determined by sub-
tracting the character space (octal 40) from the character.
Groups of 3 bytes are stored in 4 characters, 6 bits per character. All are offset by a space to make the characters printing. The last
line may be shorter than the normal 45 bytes. If the size is not a multiple of 3, this fact can be determined by the value of the count on
the last line. Extra garbage will be included to make the character count a multiple of 4. The body is terminated by a line with a count
of zero. This line consists of one ASCII space.
The trailer line consists of end on a line by itself.
SEE ALSO
uuencode(1), uudecode(1), uusend(1), uucp(1), mail(1)
HISTORY
The uuencode file format appeared in BSD 4.0 .
UUENCODE(5)