Our Favorite Tools

These are just a few of our favorite software packages. Please let us know if you have a favorite tool that is not listed here.

Chromotogram Viewers

     For Windows and Mac OS

• ApE, A Plasmid Editor, allows alignment with GenBank files
• Finch TV (Mac),
• Finch TV (Windows),
• Sequencher (Genecodes)
• Staden Package, a free open source genomic analysis package

     Windows Specific

• Chromas, Windows specific chromatogram viewer
• BioEdit, a sequence alignment viewer and editor

     Mac OS Specific

• 4Peaks (Mekentosj), supports Mac OS X 10.3 or above
• ebiotools, a free open source genomics package for Mac OS X 10.3 or above
• Edit View (ABI)

Primer Design

• Primer3, online primer design on DNA template
• PrimerX, automated design of mutagenic primers for site-directed mutagenesis based on DNA or protein sequence

Utilities

• Stuffit Expander, to decompress zip file for Mac OS and Windows
• Winzip, another compress/decompress tool
• Mac Conversion Script, to convert .ab1 file for Edit View

Other Tools

• Oligo Calculator, calculate Tm, GC content, and Molecular Weight of your oligo
• PrimerBank, a primer database for human and mouse genes
• qbtools