Emboss Utilities
To use any of these applications when submitting a job, append their name to the /usr/ngs/EMBOSS command line.
aaindexextract dbxgcg iep pepwindow showdb abiview degapseq infoalign pepwindowall showfeat acdc descseq infoseq plotcon showorf acdpretty diffseq isochore plotorf showseq acdtable digest jembossctl polydot shuffleseq acdtrace distmat lindna preg sigcleave acdvalid dotmatcher listor prettyplot silent antigenic dotpath makenucseq prettyseq sirna backtranambig dottup makeprotseq primersearch sixpack backtranseq dreg marscan printsextract skipseq banana edialign maskfeat profit splitter biosed einverted maskseq prophecy stretcher btwisted embossdata matcher prophet stssearch cai embossversion megamerger prosextract supermatcher chaos emma merger pscan syco charge emowse msbar psiphi tcode checktrans entret mwcontam rebaseextract textsearch chips epestfind mwfilter recoder tfextract cirdna eprimer3 needle redata tfm codcmp equicktandem newcpgreport tfscan codcopy est2genome newcpgseek remap tmap coderet etandem newseq restover tranalign compseq extractalign noreturn restrict transeq cons extractfeat notseq result2hsfau trimest cpgplot extractseq nthseq result.res trimseq cpgreport findkm octanol revseq twofeat cusp freak oddcomp runJemboss.csh union cutgextract fuzznuc palindrome seealso vectorstrip cutseq fuzzpro pasteseq seqmatchall water dan fuzztran patmatdb seq.out whichdb dbiblast garnier patmatmotifs seqret wobble dbifasta geecee pepcoil seqret.dbg wordcount dbiflat getorf pepinfo seqretsplit wordfinder dbigcg helixturnhelix pepnet seqr.out wordmatch dbxfasta hmoment pepstats seq_tpa.res wossname dbxflat hsfau pepwheel showalign yank
Applications Support
The NGS cannot offer scientific support for applications. However if you require further information or believe there is something wrong with the installation, please contact the NGS support centre.
Acknowledgements
Please note: When publishing work based on use of the NGS, users should acknowledge both the authors of any programs used (see the individual program web sites, or contact the authors directly) and the NGS directly using the following line:
"The authors would like to acknowledge the use of the UK National Grid Service in carrying out this work"
This line must also accompany any use of the NGS logos.
