[Bioc-devel] EnMCB reduce dependencies

[xin wwa]

Dear Carey,
Thank you for your email!
IlluminaHumanMethylation450kanno.ilmn12.hg19 depends on minfi, so if we
load the ..anno.. package.
We will always get minfi package in the dependencies list.
Maybe we can directly reupload or include the annotation dataframe in our
package?

Regards,
Xin Yu
Ph.D. student of Biomedical Informatics
College of Bioinformatics - Huazhong Agricultural University
whirlsyu using gmail.com
yuxin using webmail.hzau.edu.cn
tel: (+86) 186-5313-5769


Vincent Carey <stvjc using channing.harvard.edu> 于2021年5月21日周五 下午6:04写道：

> IlluminaHumanMethylation450kanno.ilmn12.hg19 is primarily
> a collection of data.frames isn't it?  I notice that the
> Illum...anno... package itself depends on minfi, which seems
> unnecessary.  But perhaps Kasper will comment.
>
> On Fri, May 21, 2021 at 5:32 AM xin wwa <whirlsyu using gmail.com> wrote:
>
>> Dear Bioconductor team,
>>
>> Hi, thank you for reading my email.
>>
>> Our package has too many dependencies.
>> Therefore, we may want to reduce dependencies.
>> The main reason is that we use
>> minfi::getAnnotation("IlluminaHumanMethylation450kanno.ilmn12.hg19"). And
>> minfi package we used has lots of dependencies.
>> This is only an annotation table that contains some probe information.
>> Is there a way to load the annotation file independent of minfi package?
>>
>> Thanks in advance. Any help is appreciated!
>>
>> Regards,
>>
>> Xin Yu
>> Ph.D. student of Biomedical Informatics
>> College of Bioinformatics - Huazhong Agricultural University
>> whirlsyu using gmail.com
>> yuxin using webmail.hzau.edu.cn
>> tel: (+86) 186-5313-5769
>>
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>>
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