How to cite FaBox in a paper
Villesen, P (2007), FaBox: an online toolbox for fasta sequences,
Villesen, P (2007), FaBox: an online fasta sequence toolbox, http://www.birc.au.dk/software/fabox
FaBox runs out of memory / large sequence sets!FaBox is written in PHP and ONLY RUNS ON A WEBSERVER!!! I do NOT have the possibility to increase the memory allowed, so the only workaround is to:
1. download FaBox
2. Install it to your OWN webserver
3. Configure your OWN webserver allowing a lot of memory usage
But then the main idea is lost, so I suggest you find some other software that will do it for you - or team up with some bioinformaticians (collaborations are welcome, just email me).
Download FaBoX and run it on your own webserverDIrect download of FaBox: Downloads directory
Please note that FaBox is written in PHP and ONLY RUNS ON A WEBSERVER!!!
Installation instructionsUnzip the files to a directory on your webbrowser.
Then you may edit the file "config.inc.php" in order to enable:
The toolbox is developed to help the handling of DNA and protein sequences and is usefull when you either
Typically I have often wanted to be able to combine the description of my data (often in excel spreadsheets) with the actual data (often DNA sequences). Hence the first tools in the toolbox is for manipulating fasta headers, cropping alignments and doing some sequence comparison.
Also, producing correct input files for a range of programs seems to be problematic for the average user. The advantage of a converter is that it is guaranteed to work. Hence, I have included some converters in some of the services as well as some stand-alone converters. The converters are not necessarily meant to provide the final input file, but you'll get a valid input file for Arlequin, MrBayes etc. - that you may further edit so it suit your needs.
This means that you may need to combine several of the tools to finish your handling - but it keeps it relatively simple to use.
For many bioinformaticians these tools are trivial and can be re-written in seconds. For the general user, they are quite likely to be useful.
Please see individual help files for each service.