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YuLab-SMU / ChIPseeker

:dart: ChIP peak Annotation, Comparison and Visualization
https://onlinelibrary.wiley.com/share/author/GYJGUBYCTRMYJFN2JFZZ?target=10.1002/cpz1.585
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covplot #39

Closed beckedorff closed 8 years ago

beckedorff commented 8 years ago

I am with issues in covplot. I have tried to run the command on your test data and get the following error message. library(ChIPseeker) files=getSampleFiles() peak=GenomicRanges::GRangesList(CBX6=readPeakFile(files[[4]]), CBX7=readPeakFile(files[[5]])) p=covplot(peak) Error in file.exists(peak) : invalid 'file' argument

GuangchuangYu commented 8 years ago

you are using out-dated version.

On Fri, Sep 2, 2016 at 8:28 AM, beckedorff notifications@github.com wrote:

I am with issues in covplot. I have tried to run the command on your test data and get the following error message. library(ChIPseeker) files=getSampleFiles() peak=GenomicRanges::GRangesList(CBX6=readPeakFile(files[[4]]), CBX7=readPeakFile(files[[5]])) p=covplot(peak) Error in file.exists(peak) : invalid 'file' argument

— You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub https://github.com/GuangchuangYu/ChIPseeker/issues/39, or mute the thread https://github.com/notifications/unsubscribe-auth/AAmPa-hFglPZW5AiX9MYwEvUuk9hE17kks5ql22-gaJpZM4JzQqW .

--~--~---------~--~----~------------~-------~--~----~ Guangchuang Yu, PhD Candidate State Key Laboratory of Emerging Infectious Diseases School of Public Health The University of Hong Kong Hong Kong SAR, China www: https://guangchuangyu.github.io -~----------~----~----~----~------~----~------~--~---

beckedorff commented 8 years ago

I have installed yesterday the package and update biocobductor also yesterday. Could be another thing ??

Em 1 de set de 2016 11:39 PM, "Guangchuang Yu" notifications@github.com escreveu:

you are using out-dated version.

On Fri, Sep 2, 2016 at 8:28 AM, beckedorff notifications@github.com wrote:

I am with issues in covplot. I have tried to run the command on your test data and get the following error message. library(ChIPseeker) files=getSampleFiles() peak=GenomicRanges::GRangesList(CBX6=readPeakFile(files[[4]]), CBX7=readPeakFile(files[[5]])) p=covplot(peak) Error in file.exists(peak) : invalid 'file' argument

— You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub https://github.com/GuangchuangYu/ChIPseeker/issues/39, or mute the thread https://github.com/notifications/unsubscribe-auth/AAmPa- hFglPZW5AiX9MYwEvUuk9hE17kks5ql22-gaJpZM4JzQqW .

--~--~---------~--~----~------------~-------~--~----~ Guangchuang Yu, PhD Candidate State Key Laboratory of Emerging Infectious Diseases School of Public Health The University of Hong Kong Hong Kong SAR, China www: https://guangchuangyu.github.io -~----------~----~----~----~------~----~------~--~---

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/GuangchuangYu/ChIPseeker/issues/39#issuecomment-244275472, or mute the thread https://github.com/notifications/unsubscribe-auth/AID4u0aNiaEfw358EA3lT703jyCwQ96cks5ql5phgaJpZM4JzQqW .

GuangchuangYu commented 8 years ago

follow the guide and show me the output of rvcheck::check_bioc("ChIPseeker").