- Jul 2018
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europepmc.org europepmc.org
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On 2017 Feb 20, Stuart MacGregor commented:
Thank you for the bug report Christoph. Following your bug report (January 2016), the bug was fixed on the VEGAS2 web-based version in January 2016 but unfortunately not until January 2017 on the VEGAS2 offline version. Users who ran the top % test (not the default option) using VEGAS2 prior to these dates (or using the now retired VEGAS1) should re-run their analysis using VEGAS2. There is an FAQ item on this at https://vegas2.qimrberghofer.edu.au
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On 2017 Jan 18, CHRISTOPH LANGE commented:
The VEGAS/VEGAS2 software can provide p-values for the top-percentage statistic that are anti-conservative, as the computation of the null-distribution is incorrect. In our technical report, we discuss the issue and provide code that, if included in VEGAS/VEGAS2, will provide correct p-values.
http://biorxiv.org/content/early/2017/01/17/101014
This comment, imported by Hypothesis from PubMed Commons, is licensed under CC BY.
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- Feb 2018
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europepmc.org europepmc.org
-
On 2017 Jan 18, CHRISTOPH LANGE commented:
The VEGAS/VEGAS2 software can provide p-values for the top-percentage statistic that are anti-conservative, as the computation of the null-distribution is incorrect. In our technical report, we discuss the issue and provide code that, if included in VEGAS/VEGAS2, will provide correct p-values.
http://biorxiv.org/content/early/2017/01/17/101014
This comment, imported by Hypothesis from PubMed Commons, is licensed under CC BY. -
On 2017 Feb 20, Stuart MacGregor commented:
Thank you for the bug report Christoph. Following your bug report (January 2016), the bug was fixed on the VEGAS2 web-based version in January 2016 but unfortunately not until January 2017 on the VEGAS2 offline version. Users who ran the top % test (not the default option) using VEGAS2 prior to these dates (or using the now retired VEGAS1) should re-run their analysis using VEGAS2. There is an FAQ item on this at https://vegas2.qimrberghofer.edu.au
This comment, imported by Hypothesis from PubMed Commons, is licensed under CC BY.
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