GEMBASSY: an EMBOSS associated software package for comprehensive genome analyses

Table 1 Complete list of 53 tools implemented in GEMBASSY

*Category*	*Method name*	*Category*	*Method name*
*Data Retrieval*	gentrez		gbasezvalue
	genret		gconsensusz
*Display*	gcgr		gdeltagcskew
	gcircularmap		gdistincc
	gdnawalk		gfindoriter
	ggenomemap3		ggcsi
	gseq2png		ggcskew
*Nucleic Codon Usage*	gbui		ggcwin
	gcai		ggeneskew
	gcbi		ggenomicskew
	gcodoncompiler		gkmertable
	gdeltaenc		gldabias
	gdinuc		gnucleotideperiodicity
	genc		goligomercounter
	gew		goligomersearch
	gfop		gpalindrome
	gicdi		gqueryarm
	gp2		gquerystrand
	gphx		greporiter
	gsvalue		gscs
	gwvalue		gseqinfo
*Nucleic Composition*	gb1		gsignature
	gb2		gviewcds
	gbasecounter	*Nucleic Mutation*	gshuffleseq
	gbaseentropy	*Protein Composition*	gaminoinfo
	gbaseinformationcontent	*Protein Properties*	gaaui
	gbaserelativeentropy

Implemented tools are mostly consisted of genome analysis methods for nucleotide composition, codon usage, and genome information visualization, which are mainly implemented with published algorithms. The letter “g” is prefixed to indicate the software as a tool included in the GEMBASSY package. Detailed documentations for each of the tools as well as full references are available at the GEMBASSY web site (http://www.g-language.org/gembassy/).

ISSN: 1751-0473