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Table 1 List of supported services

From: KBWS: an EMBOSS associated package for accessing bioinformatics web services

Category Service Name References Tool Name
ALIGNMENT LOCAL BLAST Altschul et al., 1990 kblast
   McWilliam et al., 2009  
  SSEARCH Mackey et al., 2002 kssearch
   McWilliam et al., 2009  
ALIGNMENT MULTIPLE ClustalW Larkin et al., 2007 kclustalw
   McWilliam et al., 2009  
  MAFFT Katoh et al., 2009 kmafft
  Kalign Lassmann et al., 2006 kkalign
   McWilliam et al., 2009  
  MUSCLE Edgar, 2004 kmuscle
  T-Coffee Notredame et al., 2000 ktcoffee
   McWilliam et al., 2009  
NUCLEIC COMPOSITION WebLogo Crooks et al., 2004 kweblogo
NUCLEIC GENE FINDING GeneMarkHMM Lukashin et al., 1998 kgenemarkhmm
  GLIMMER Delcher et al., 1999 kglimmer
  tRNAscan-SE Lowe et al., 1997 ktrnascan_se
PROTEIN LOCALIZATION PSORT Nakai et al., 1991 kpsort
  PSORT2 Nakai et al., 1991 kpsort2
  PSORT-B Yu et al., 2010 kpsortb
  WoLF PSORT Horton et al., 2007 kwolfpsort
PROTEIN MOTIFS Phobius Lukas et al., 2004 kphobius
   McWilliam et al., 2009  
PROTEIN PROFILES dbFetch Labarga et al., 2007 kfetchdata, kfetchbatch
   McWilliam et al., 2009  
RNA 2D STRUCTURE DISPLAY Centroid Fold Sato et al., 2009 kcentroidfold
  RNAfold Hofacker et al., 1994 krnafold
PATHWAY MAPPING PathwayProjector Kono et al., 2009 kpathwayprojector
PHYLIP Tools PHYLIP Lim et al., 1999 kclique, kcontml
    kdnacomp, kdnadist
    kdnainvar, kdnaml
    kdnamlk, kdnapars
    kdnapenny, kdollop
    kdolpenny, kfitch
    kgendist, kkitsch, kmix
    kneighbor, kpenny
    kprotdist, kprotpars
    krestml, kseqboot
  1. The software categories are based on those used in EMBOSS. Complete listings including full references and URLs are available at our website (http://www.g-language.org/kbws/).