Re: [Bioc-devel] Question on prospective Bioc package

[SUTIRTHA CHAKRABORTY via Bioc-devel]

 Seems like this would be a great contribution.

Best Regards
Sutirtha
On Wednesday, 22 February 2023, 03:02:52 PM IST, Wolfgang Huber 
 wrote:  
 
 Dear Greg

This sounds like a typical use case for a Bioconductor package.
Simplicity is a not a bad thing—robust, well-engineered building blocks that do 
one thing really well are IMHO often more useful to many than big integrated 
complex jack of all trades.


Thanks and best wishes
Wolfgang





> Il giorno 17.02.2023, alle ore 18:26, Flanigan, Greg (NIH/NCI) [C] via 
> Bioc-devel  ha scritto:
> 
> Dear Bioconductor Developer team,
> 
> I�m part of a team at the NCI that is looking at developing a Bioconductor 
> package, but I want to be sure it is a good fit with the goals of the 
> Bioconductor project.
> 
> The core of the package is a custom data object that allows users to query 
> predicted drug performance based on target gene, whether wild-type or mutant, 
> or to query predicted gene target fitness by drug. The data object is 
> precomputed based on a variety of sources, and we include methods to modify 
> the object based on custom data provided by the user.
> 
> If a more detailed dive would help, here is the preprint of the accompanying 
> paper: 
> Link
> 
> I think this tool will offer good impact and utility for researchers. Its 
> predictions are well-validated and it offers a novel method for examining 
> drug performance on various cancers. However, given the simplicity of this 
> tool, would it be a good fit for the Bioconductor project? I would appreciate 
> your opinion. We will be developing it into a package hosted on GitHub either 
> way. Thank you for your time!
> 
> Sincerely,
> Greg
> 
> 
> 
> [[alternative HTML version deleted]]
> 
> ___
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Re: [Bioc-devel] Question on prospective Bioc package

[Wolfgang Huber]

Dear Greg

This sounds like a typical use case for a Bioconductor package.
Simplicity is a not a bad thing—robust, well-engineered building blocks that do 
one thing really well are IMHO often more useful to many than big integrated 
complex jack of all trades.


Thanks and best wishes
Wolfgang





> Il giorno 17.02.2023, alle ore 18:26, Flanigan, Greg (NIH/NCI) [C] via 
> Bioc-devel  ha scritto:
> 
> Dear Bioconductor Developer team,
> 
> I�m part of a team at the NCI that is looking at developing a Bioconductor 
> package, but I want to be sure it is a good fit with the goals of the 
> Bioconductor project.
> 
> The core of the package is a custom data object that allows users to query 
> predicted drug performance based on target gene, whether wild-type or mutant, 
> or to query predicted gene target fitness by drug. The data object is 
> precomputed based on a variety of sources, and we include methods to modify 
> the object based on custom data provided by the user.
> 
> If a more detailed dive would help, here is the preprint of the accompanying 
> paper: 
> Link
> 
> I think this tool will offer good impact and utility for researchers. Its 
> predictions are well-validated and it offers a novel method for examining 
> drug performance on various cancers. However, given the simplicity of this 
> tool, would it be a good fit for the Bioconductor project? I would appreciate 
> your opinion. We will be developing it into a package hosted on GitHub either 
> way. Thank you for your time!
> 
> Sincerely,
> Greg
> 
> 
> 
> [[alternative HTML version deleted]]
> 
> ___
> Bioc-devel@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel

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[Bioc-devel] Question on prospective Bioc package

[Flanigan, Greg (NIH/NCI) [C] via Bioc-devel]

Dear Bioconductor Developer team,

I�m part of a team at the NCI that is looking at developing a Bioconductor 
package, but I want to be sure it is a good fit with the goals of the 
Bioconductor project.

The core of the package is a custom data object that allows users to query 
predicted drug performance based on target gene, whether wild-type or mutant, 
or to query predicted gene target fitness by drug. The data object is 
precomputed based on a variety of sources, and we include methods to modify the 
object based on custom data provided by the user.

If a more detailed dive would help, here is the preprint of the accompanying 
paper: 
Link

I think this tool will offer good impact and utility for researchers. Its 
predictions are well-validated and it offers a novel method for examining drug 
performance on various cancers. However, given the simplicity of this tool, 
would it be a good fit for the Bioconductor project? I would appreciate your 
opinion. We will be developing it into a package hosted on GitHub either way. 
Thank you for your time!

Sincerely,
Greg



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