Re: ChIPpeakAnno 2.12.2 bug
"Zhu, Lihua (Julie)" <Julie.Zhu-3WprALB+yeL2fBVCVOL8/[email protected]>
| Newsgroups | gmane.science.biology.informatics.conductor |
|---|---|
| Message-ID | <D0115522.BA2F%[email protected]> |
Matt, Many thanks for helping us identifying the bug introduced in 2.12.2! The bug has been fixed in version 2.13.1. Please let me know if you have any issues. For future correspondence, could you please keep the discussion in the bioconductor list so others can contribute or benefit? Thanks! Best regards, Julie On 8/13/14 1:18 PM, "Zinkgraf, Matthew S -FS" <[email protected]> wrote: Hello Julie I recently updated ChIPpeakAnno from version 2.10 to 2.12.2 and I am getting incorrect results from annotatePeakInBatch. More specifically the output column insideFeature is not taking feature strand into account when it is assigning peaks to gene features, the function thinks all gene features are on the positive strand even though my genome ranged data contains strand information. Also all other calculations from annotatePeakInBatch gives the same results as in 2.10. Please let me know if you would like more information about the bug I am getting. Thanks Matt --- Matthew S. Zinkgraf, PhD Postdoctoral Researcher USDA, Forest Service Davis, CA 95618 530-759-1739 [email protected] <mailto:[email protected]> This electronic message contains information generated by the USDA solely for the intended recipients. Any unauthorized interception of this message or the use or disclosure of the information it contains may violate the law and subject the violator to civil or criminal penalties. If you believe you have received this message in error, please notify the sender and delete the email immediately. [[alternative HTML version deleted]] _______________________________________________ Bioconductor mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/bioconductor Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor