primeScaff
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primeScaff is intended to automate the sometimes tedious process of manually designing specific primer pairs around gaps of genomic scaffolds and speedup the genome finishing stage of a genome sequencing project. It incorporates de-novo repeat finding using RECON to avoid as much as possible designing primers in repetitive regions and offers the possibility to easily fine-tune the primer design options using primer3. It outputs the repeat, gap and primer annotations in gff2 and gff3 to easily load and visualize the results using tools like UGENE (recommended) or artemis.
primeScaff License - GNU General Public License version 3.0 (GPLv3)
Free download from Shareware Connection - primeScaff is intended to automate the sometimes tedious process of manually designing specific primer pairs around gaps of genomic scaffolds and speedup the genome finishing stage of a genome sequencing project.
Version: 1.5 | Size: 4964 KB | Platform: Linux, Mac OS X
Released Date: | Rating: 0 | Title: primeScaff
Author Url: http://sourceforge.net/projects/primescaff
Program Info Url: http://sourceforge.net/projects/primescaff
Download Url: http://sourceforge.net/projects/primescaff/files/latest/download?source=directory
Screenshot Url: http://sourceforge.net/projects/primescaff/screenshots/Screenshot%20from%202012-08-26%2020:59:38.png
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