ApE - A Plasmid Editor (software review)

From OpenWetWare

Revision as of 04:25, 30 June 2010 by Jakob Suckale (Talk | contribs)
Jump to: navigation, search

ApE, created and maintained by Wayne Davis from the University of Utah, is an free, basic sequence editor.

Contents

Features

= OS, data format

  • runs on Windows, OS X, and Linux/Unix
  • imports DNA Strider, Fasta, Genbank, EMBL and ABI sequence traces
  • saves data in a modified Genbank file format (DNA Strider-compatible)
  • exports BankIt feature table for sequence submission to NCBI GenBank
  • export graphic files of sequence diagrams

= Sequence markup and tools

  • pre-existing expandable feature tables which can be used for automatic annotation
  • sequence search, e.g. for primers, probes, or restriction sites
  • restriction sites and region markup in sequence and in a simple cartoon
  • shows translation, Tm, %GC, ORF of selected DNA
  • BLAST selected sequence at NCBI or wormbase
  • virtual digest including gel diagram

Links to the ApE homepage

See also

Personal tools