Advanced Search
MyIDEAS: Login to save this article or follow this journal

Using Stata with PHASE and Haploview: Commands for importing and exporting data

Contents:

Author Info

  • J. Charles Huber Jr.

    ()
    (Texas A&M Health Science Center School of Rural Public Health)

Registered author(s):

    Abstract

    Modern genetics studies require the use of many specialty software programs for various aspects of the statistical analysis. PHASE is a program often used to reconstruct haplotypes from genotype data, and Haploview is a program often used to visualize and analyze single nucleotide polymorphism data. Three new commands are described for performing these three steps: 1) exporting geno- type data stored in Stata to PHASE, 2) importing the resulting inferred haplotypes back into Stata, and 3) exporting the haplotype/single nucleotide polymorphism data from Stata to Haploview. Copyright 2010 by StataCorp LP.

    Download Info

    If you experience problems downloading a file, check if you have the proper application to view it first. In case of further problems read the IDEAS help page. Note that these files are not on the IDEAS site. Please be patient as the files may be large.
    File URL: http://www.stata-journal.com/article.html?article=st0199
    File Function: link to article download
    Download Restriction: no

    Bibliographic Info

    Article provided by StataCorp LP in its journal Stata Journal.

    Volume (Year): 10 (2010)
    Issue (Month): 3 (September)
    Pages: 359-368

    as in new window
    Handle: RePEc:tsj:stataj:v:10:y:2010:i:3:p:359-368

    Note: to access software from within Stata, net describe http://www.stata-journal.com/software/sj10-3/st0199/
    Contact details of provider:
    Web page: http://www.stata-journal.com/

    Order Information:
    Web: http://www.stata-journal.com/subscription.html

    Related research

    Keywords: phaseout; phasein; haploviewout; genetics; haplotypes; SNPs; PHASE; haploview;

    References

    No references listed on IDEAS
    You can help add them by filling out this form.

    Citations

    Lists

    This item is not listed on Wikipedia, on a reading list or among the top items on IDEAS.

    Statistics

    Access and download statistics

    Corrections

    When requesting a correction, please mention this item's handle: RePEc:tsj:stataj:v:10:y:2010:i:3:p:359-368. See general information about how to correct material in RePEc.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: (Christopher F. Baum) or (Lisa Gilmore).

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    If references are entirely missing, you can add them using this form.

    If the full references list an item that is present in RePEc, but the system did not link to it, you can help with this form.

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your profile, as there may be some citations waiting for confirmation.

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.