Skip to main content

Thank you for visiting You are using a browser version with limited support for CSS. To obtain the best experience, we recommend you use a more up to date browser (or turn off compatibility mode in Internet Explorer). In the meantime, to ensure continued support, we are displaying the site without styles and JavaScript.

NGS analyses by visualization with Trackster

This is a preview of subscription content, access via your institution

Relevant articles

Open Access articles citing this article.

Access options

Buy article

Get time limited or full article access on ReadCube.


All prices are NET prices.

Figure 1: Using Trackster to improve XBP1 transcript assembly results via interactive tool use and parameter-space exploration.
Figure 2: Using Trackster to dynamically filtering transcript assemblies for multiple tissues to identify highquality transcripts and filter out assembly artifacts.


  1. Trapnell, C. et al. Nat. Biotechnol. 28, 511–515 (2010).

    Article  CAS  Google Scholar 

  2. Trapnell, C. et al. Nat. Protoc. 7, 562–578 (2012).

    Article  CAS  Google Scholar 

  3. Nielsen, C.B., Cantor, M., Dubchak, I., Gordon, D. & Wang, T. Nat. Methods 7, S5–S15 (2010).

    Article  CAS  Google Scholar 

  4. Rutherford, K. et al. Bioinformatics 16, 944–945 (2000).

    Article  CAS  Google Scholar 

  5. Kent, W.J. Genome Res. 12, 996–1006 (2002).

    Article  CAS  Google Scholar 

  6. Robinson, J.T. et al. Nat. Biotechnol. 29, 24–26 (2011).

    Article  CAS  Google Scholar 

  7. Fiume, M., Williams, V., Brook, A. & Brudno, M. Bioinformatics 26, 1938–1944 (2010).

    Article  CAS  Google Scholar 

  8. Jankun-Kelly, T.J. & Kwan-Liu, M. IEEE Transactions on Visualization and Computer Graphics 7, 275–287 (2001).

    Article  Google Scholar 

  9. Pretorius, A.J., Bray, M.A.P., Carpenter, A.E. & Ruddle, R.A. IEEE Transactions on Visualization and Computer Graphics 17, 2402–2411 (2011).

    Article  Google Scholar 

  10. Goecks, J., Nekrutenko, A., Taylor, J. & the Galaxy Team. Genome Biology 11, R86 (2010).

    Article  Google Scholar 

  11. Blankenberg, D. et al. Curr. Protoc. Mol. Biol. 89, 19.10.1–19.10.21 (2010).

    Google Scholar 

  12. Ron, D. & Walter, P. Nat. Rev. Mol. Cell Biol. 8, 519–529 (2007).

    Article  CAS  Google Scholar 

  13. Walter, P. & Ron, D. Science 334, 1081–1086 (2011).

    Article  CAS  Google Scholar 

  14. Mori, K. J. Biochem. 146, 743–750 (2009).

    Article  CAS  Google Scholar 

  15. Calfon, M. et al. Nature 415, 92–96 (2002).

    Article  CAS  Google Scholar 

  16. Yanagitani, K., Kimata, Y., Kadokura, H. & Kohno, K. Science 331, 586–589 (2011).

    Article  CAS  Google Scholar 

  17. Guo, H., Ingolia, N.T., Weissman, J.S. & Bartel, D.P. Nature 466, 835–840 (2010).

    Article  CAS  Google Scholar 

  18. Reid, D.W. & Nicchitta, C.V. J. Biol. Chem. 287, 5518–5527 (2012).

    Article  CAS  Google Scholar 

Download references


Efforts of the Galaxy Team (E. Afgan, D. Baker, D. Blankenberg, N.C., J.G., G. Von Kuster, R. Lazarus, K. Li) were instrumental in making this work happen. This project was supported by American Recovery and Reinvestment Act (ARRA) funds through grant number HG005542 from the National Human Genome Research Institute, National Institutes of Health, as well as grants HG005133, HG004909 and HG006620 and National Science Foundation grant DBI 0543285. Additional funding is provided, in part, under a grant from the Pennsylvania Department of Health using Tobacco Settlement Funds. The Department specifically disclaims responsibility for any analyses, interpretations or conclusions.

Author information

Authors and Affiliations


Corresponding authors

Correspondence to Anton Nekrutenko or James Taylor.

Ethics declarations

Competing interests

The authors declare no competing financial interests.

Supplementary information

Supplementary Text and Figures

Supplementary Figure 1 & Table 1 (PDF 199 kb)

Rights and permissions

Reprints and Permissions

About this article

Cite this article

Goecks, J., Coraor, N., Team, T. et al. NGS analyses by visualization with Trackster. Nat Biotechnol 30, 1036–1039 (2012).

Download citation

  • Published:

  • Issue Date:

  • DOI:

This article is cited by


Quick links

Nature Briefing

Sign up for the Nature Briefing newsletter — what matters in science, free to your inbox daily.

Get the most important science stories of the day, free in your inbox. Sign up for Nature Briefing