The GUIDANCE2 Server
Server for alignment confidence score
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Credits
GUIDANCE2 citing & credits



When citing the GUIDANCE2 server please refer to:
Sela, I., Ashkenazy, H., Katoh, K. and Pupko, T. (2015)
GUIDANCE2: accurate detection of unreliable alignment regions accounting for the uncertainty of multiple parameters.
 Nucleic Acids Research, 2015 Jul 1; 43 (Web Server issue): W7-W14.; doi: 10.1093/nar/gkq443 [ABS] [PDF]

Landan, G., and D. Graur. (2008).
Local reliability measures from sets of co-optimal multiple sequence alignments.
Pac Symp Biocomput 13:15-24 [ABS] [PDF]

Penn, O., Privman, E., Ashkenazy, H., Landan, G., Graur, D. and Pupko, T. (2010).
GUIDANCE: a web server for assessing alignment confidence scores.
 Nucleic Acids Research, 2010 Jul 1; 38 (Web Server issue):W23-W28; doi: 10.1093/nar/gkq443 [ABS] [PDF]

  • When using the GUIDANCE2 algorithm please cite:
    Sela, I., Ashkenazy, H., Katoh, K. and Pupko, T. (2015)
    GUIDANCE2: accurate detection of unreliable alignment regions accounting for the uncertainty of multiple parameters.
     Nucleic Acids Research, 2015 Jul 1; 43 (Web Server issue): W7-W14.; doi: 10.1093/nar/gkq443 [ABS] [PDF]

    Landan, G., and D. Graur. (2008).
    Local reliability measures from sets of co-optimal multiple sequence alignments.
    Pac Symp Biocomput 13:15-24 [ABS] [PDF]


  • When using the GUIDANCE algorithm please cite:
    Penn, O., Privman, E., Landan, G., Graur, D. and Pupko, T. (2010).
    An alignment confidence score capturing robustness to guide-tree uncertainty.
    Molecular Biology and Evolution, 2010 Aug;27(8):1759-67; doi:10.1093/molbev/msq066 [ABS] [PDF]


  • When using the HoT algorithm please cite:
    Landan, G., and D. Graur. (2008).
    Local reliability measures from sets of co-optimal multiple sequence alignments.
    Pac Symp Biocomput 13:15-24 [ABS] [PDF]


Acknowledgements
 Itamar Sela, Haim Ashkenazy and Tal Pupko developed the GUIDANCE2 algorithm.
Osnat Penn, Eyal Privman and Tal Pupko developed the GUIDANCE algorithm.
Giddy Landan and Dan Graur developed the HoT algorithm.
Haim Ashkenazy developed the web-server.

We thank Prof. Barry Hall and the referees and editors of Nucleic Acid Research and Molecular Biology and Evolution for their insightful comments and suggestions, which contributed much to the usefulness and friendliness of GUIDANCE and GUIDANCE2.

Development of GUIDANCE was supported by Israel Science Foundation grant no. 878/09 to Tal Pupko and US National Library of Medicine grant no. LM010009-01 to Dan Graur and Giddy Landan.
Osnat Penn was supported by the Converging Technologies Program.
Eyal Privman, Haim Ashkenazy and Itamar Sela supported by the Edmond J. Safra Center for Bioinformatics