BioGraphServ is a webapp which generates graphs from small bioinformatics file formats (BED, Gene lists, VCF etc)
It is free to use, with no login required: http://biographserv.com
If you use BioGraphServ in a paper, please cite the webpage for now - thanks. (I will start writing a paper in the 2nd half of 2015)
The code is released under the Creative Commons by Attribution licence. You are free to use and modify it for any purpose (including commercial), so long as you cite/link http://biographserv.com (or a paper if one exists).
I would love help - either implementing new features or improving existing ones.