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fahash - Online in the Cloud

Run fahash in OnWorks free hosting provider over Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator

This is the command fahash that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator

PROGRAM:

NAME


fahash - sequence hash builder for reverse e-PCR

SYNOPSIS


fahash [-hV] -b hash-file [-w wdsize] [-f period] [-F fragment_min,fragment_max] [-k] [-c
cachesize] [-v 1|2] famap-file ...

fahash [-hV] -T hash-file [-o outfile]

DESCRIPTION


The program fahash is part of the e-PCR suite and is used to build hash-files, and output
word usage statistics for reverse e-PCR searches.

OPTIONS


-b hash-file
Build hash tables (hash-file) from sequence files,

-T hash-file
Print word usage statistics for hash-file

-o outfile
Write output to file `outfile'

build-options:
-w wordsize
Set word size when building hash tables

-f period
Set discontiguity when building hash tables

-k Skip repeats when building hash-file

-F min,max
Set watermarks for fragment size (in Mb) (version 1 only)

-c cachesize
Set cache size (version 2 only)

-v ver Use format version (1|2, 2 is default)

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 re-pcr(1)

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