Fasta Tools is a GUI based, Perl made
application. It performs several operations to Fasta formatted,
protein databases (DB).
The main actions performed by FastaTools are:
DB exploration: it shows the first
50 lines of the database
DB Analysis: the number of lines,
proteins and peptides generated after digestion by an enzyme are
reported.
Five different enzymes are supported at this time, and the
user can specify the number of missed cleavages, minimum and maximum
masses for peptide generation.
Decoy DataBase generation: a decoy
database is generated using the specified DB.
Three strategies of
decoy generation are supported (reverse, random and pseudo-random).
The new DB can be attached to the original or not.
DB Search: a simple text or a list
of terms can be introduced to be searched inside the DB.
The headers
or the sequences can be scanned, into three general strategies:
. search headers to generate a
sub-DB in fasta format
. search sequences to generate a
sub-DB in fasta format
. search sequences to generate a
peptide-protein pairs list
This software has been produced at
the Proteomics Facility CSIC-UAB by David Ovelleiro. It is under
Academic Free License (related to the Open Source Initiative)
and the source code and binaries are available at the project page
https://sourceforge.net/projects/fastatools/.
We will greatly appreciate any comment, review or suggestion about the code, application, actions performed
or new ideas about FastaTools. |
