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Special Forums News, Links, Events and Announcements Software Releases - RSS News UnHash 1.0 (Default branch)
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Old 05-19-2008
UnHash 1.0 (Default branch)
Image UnHash is a program that tries a brute force attack against a given hash. The hash can be MD5 or SHA1, and the program will auto-detect which one is given. License: GNU General Public License (GPL) Changes:
The bundled MD5 and SHA1 code has been removed. This release has complete reliance on OpenSSL. A floating point exception bug in print_stats() has been fixed. A termio bug where stdout redirection did not work upon SIGINT (Ctl-C) has been fixed. Digest comparisons have been moved out of hash functions into the main loop. There is a new feature to read hashes from a file. Runtime stats are disabled due to various bugs. A linked list to hold digests has been added.Image

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LEARN ABOUT DEBIAN

re-pcr

RE-PCR(1)						      General Commands Manual							 RE-PCR(1)

NAME

       re-PCR -- Find sequence tagged sites (STS) in DNA sequences

SYNOPSIS

       re-PCR [-hV] -p hash-file [-g gaps] [-n mism] [-lq] [primer ...]

       re-PCR [-hV] -P hash-file [-g gaps] [-n mism] [-l] [-m margin] [-O+|-] [-C batchcnt] [-o outfile] [-r+|-] [primers-file ...]

       re-PCR [-hV] -s hash-file [-g gaps] [-n mism] [-lq] [-m margin] [-o outfile] [-r+|-] [left right lo[-hi] [...]]

       re-PCR [-hV] -S hash-file [-g gaps] [-n mism] [-lq] [-m margin] [-O+|-] [-C batchcnt] [-o outfile] [-r+|-] [stsfile ...]

DESCRIPTION

       Implements reverse searching (called Reverse e-PCR) to make it feasible to search the human genome sequence and other large genomes by per-
       forming STS and primer searches.

OPTIONS

       -p=hash-file
		 Perform primer lookup using hash-file

       -P=hash-file
		 Perform primer lookup using hash-file

       -s=hash-file
		 Perform STS lookup using hash-file

       -S=hash-file
		 Perform STS lookup using hash-file

       -n=mism	 Set max allowed mismatches per primer for lookup

       -g=gaps	 Set max allowed indels per primer for lookup

       -m=margin Set variability for STS size for lookup

       -l	 Use presize alignments (only if gaps>0)

       -G	 Print alignments in comments

       -d=min-max
		 Set default STS size

       -r=+|-	 Enable/disable reverse STS lookup

       -O=+|-	 Enable/disable syscall optimisation

       -C=batchcnt
		 Set number of STSes per batch

       -o=outfile
		 Set output file name

       -q	 Quiet (no progress indicator)

EXAMPLE

	famap -tN -b genome.famap org/chr_*.fa

	fahash -b genome.hash -w 12 -f3 ${PWD}/genome.famap

	re-PCR -s genome.hash -n1 -g1 ACTATTGATGATGA AGGTAGATGTTTTT 120-200

       See famap(1) and fahash(1)

SEE ALSO

       /usr/share/doc/ncbi-epcr/README.txt

       bioperl(1), e-pcr(1), famap(1) and fahash(1)

AUTHORS

       This manual page was written by Andreas Tille <tille@debian.org> for the Debian system (but may be used by others).  Permission is  granted
       to copy, distribute and/or modify this document under the terms of the GNU General Public License, Version 2 any later version published by
       the Free Software Foundation.

       On Debian systems, the complete text of the GNU General Public License can be found in /usr/share/common-licenses/GPL.

								    April 2008								 RE-PCR(1)