find intersections of genomic regions with built-in genomic annotations for S.Cerevisiae
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@vivianengoune-12361
Last seen 6.0 years ago

Hello

i have already use annotatr package for H.sapiens, but now i want to find intersections of genomic regions with built-in genomic annotations for S.Cerevisiae and i want to know how i have to do it. 

thanks

Viviane

 

annotatr • 829 views
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Hi Viviane,

Thanks for using annotatr. At the moment you need to provide S. Cerevisiae annotations as custom annotations with the read_annotations() function. I am currently working on a more general function to convert any GRanges resource in the AnnotationHub  package into an annotation for use in annotatr. If S. Cerevisiae annotations are in the Hub as GRanges, you'll be able to use those. I'll update this thread when that function is implemented, tested, and released.

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rcavalca ▴ 140
@rcavalca-7718
Last seen 4.0 years ago
United States

Hi Viviane,

Thanks for using annotatr. At the moment you need to provide S. Cerevisiae annotations as custom annotations with the read_annotations() function. I am currently working on a more general function to convert any GRanges resource in the AnnotationHub  package into an annotation for use in annotatr. If S. Cerevisiae annotations are in the Hub as GRanges, you'll be able to use those. I'll update this thread when that function is implemented, tested, and released.

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@vivianengoune-12361
Last seen 6.0 years ago

Hello

Thank you for the info

annotatr could also be more interesting if we are able to build up annotation for ncRNA, not only lncRNA which didn't work pretty well when i used it.

thanks

Viviane

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