[BioC] ChipPeakAnno: 4-way venn diagram

[Zhu, Lihua (Julie)]

Dear Wolfgang,

Thanks for letting me know! That is great!

Best regards,

Julie


On 8/13/12 7:02 AM, "Wolfgang Huber" <whuber at embl.de> wrote:

> 
> Dear Julie
> 
> thanks. All my Venn diagram related needs are met by extant packages, so
> no need for further engineering from my side.
> 
> Best wishes
> Wolfgang
> 
> 
> Zhu, Lihua (Julie) scripsit 08/10/2012 03:25 PM:
>> Wolfgang,
>> 
>> Just to clarify whether you need to make 6-way venn diagram vi
>> ChIPpeakAnno:makeVennDiagram or Vennerable (or future gplot) implementation
>> suites your needs. Thanks!
>> 
>> Best regards,
>> 
>> Julie
>> 
>> 
>> ------ Forwarded Message
>> From: Heidi Dvinge <heidi at ebi.ac.uk>
>> Date: Thu, 9 Aug 2012 20:04:30 +0100
>> To: Lihua Julie Zhu <julie.zhu at umassmed.edu>
>> Cc: "bioconductor at r-project.org" <bioconductor at r-project.org>
>> Subject: Re: [BioC] ChipPeakAnno: 4-way venn diagram
>> 
>>> Wolfgang,
>>> 
>>> Looks really cool!
>>> 
>>> It seems that drawVennDiagram in gplot only supports venn diagram up to 5
>>> sets. ChIPpeakAnno::makeVennDiagram first finds the overlaps among
>>> datasets,
>>> then creates venn counts followed by calling the drawVennDiagram in gplot.
>>> Should we get the gplot developer to implement the 6-way venn diagram?
>> 
>> This is quite possibly the only example I've ever seen in an article of a
>>> 5-way Venn diagram being justified. Not to mention funny :)
>> However, if you really want to go down that route, then Vennerable does up
>> to 9-way venns (afair).
>> 
>> Best
>> \Heidi
>> 
>>> Thanks!
>>> 
>>> Best regards,
>>> 
>>> Julie
>>> 
>>> 
>>> On 8/9/12 12:11 PM, "Wolfgang Huber" <whuber at embl.de> wrote:
>>> 
>>>> 
>>>> Can we have banana-shaped 6-way Venn diagrams? Like here:
>>>> http://www.nature.com/nature/journal/v488/n7410/full/nature11241.html#/f4
>>>> 
>>>> Best wishes
>>>> Wolfgang
>>>> 
>>>> Aug/8/12 7:00 PM, Zhu, Lihua (Julie) scripsit::
>>>>> Jose,
>>>>> 
>>>>> The released version ChIPpeakAnno 2.4.0 in Bioconductor 2.10 supports
>>>>> 4-way
>>>>> venn diagram (
>>>>> http://www.bioconductor.org/packages/release/bioc/html/ChIPpeakAnno.html)
>>>>> 
>>>>>       source("http://bioconductor.org/biocLite.R")
>>>>>       biocLite("ChIPpeakAnno")
>>>>> 
>>>>> Please let me know if this works for you. Thanks!
>>>>> 
>>>>> Best regards,
>>>>> 
>>>>> Julie
>>>>> 
>>>>> On 8/8/12 12:36 PM, "José LÓPEZ" <jose.lopez at umh.es> wrote:
>>>>> 
>>>>>> Dear Julie,
>>>>>> 
>>>>>> Although makeVennDiagram currently (v2.10) supports up to 3-way venn
>>>>>> diagram
>>>>>> 
>> (https://stat.ethz.ch/pipermail/bioconductor/attachments/20110502/9d4a25c5/a
>>>>>> tt
>>>>>> achment.pl
>>>>>> ), I knew that you extended the function to 4-way in the dev version
>>>>>> (v2.2.0).
>>>>>> I need to make a 4-way venn diagram, so I would like to know whether
>>>>>> it might be possible to install the dev version to try it.
>>>>>> 
>>>>>> Thank you in advance for your time and help,
>>>>>> Kind regards,
>>>>>> 
>>>>>> Jose
>>>>>> 
>>>>>> 
>>>>>> [[alternative HTML version deleted]]
>>>>>> 
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>>>>> 
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>>>> 
>>> 
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>> 
>> 
>> 
>> ------ End of Forwarded Message
>> 
>