(inactive) CNVassoc

[isubirana]

Update the following URL to point to the GitHub repository of the package you wish to submit to Bioconductor

• Repository: https://github.com/isglobal-brge/CNVassoc

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[bioc-issue-bot]

Hi @isubirana

Thanks for submitting your package. We are taking a quick look at it and you will hear back from us soon.

The DESCRIPTION file for this package is:

Package: CNVassoc
Type: Package
Title: Association analysis of CNVs and imputed SNPs incorporating uncertainty
Version: 2.4.0
Date: 2019-03-21
Depends: R (>= 3.5.0), mixdist, mclust, survival
Imports: parallel, readr, fst, utils, graphics, stats
Suggests: MASS, Biobase, CGHbase, CGHregions, BiocStyle, knitr, rmarkdown, testthat
Author: Juan R González, Isaac Subirana
Maintainer: Isaac Subirana <isubirana@imim.es>
Description: Carries out analysis of common 
   Copy Number Variants (CNVs) and imputed Single Nucleotide 
   Polymorphisms (SNPs) in population-based studies. 
   It includes tools for estimating association under a series 
   of study designs (case-control, cohort, etc), using several 
   dependent variables (class status, censored data, counts) 
   as response, adjusting for covariates and considering 
   various inheritance models. Moreover, it is possible to 
   perform epistasis studies with pairs of CNVs or imputed SNPs.
   It has been optimized in order to make feasible the analyses 
   of Genome Wide Association studies (GWAs) with hundreds of 
   thousands of genetic variants (CNVs / imputed SNPs). Also, 
   it incorporates functions for inferring copy number (CNV 
   genotype calling). Various classes and methods for generic 
   functions (print, summary, plot, anova, ...) have been 
   created to facilitate the analysis.    
License: GPL (>= 2)
LazyLoad: yes
URL: https://github.com/isglobal-brge/CNVassoc
biocViews: Clustering, Regression, BatchEffect, Genetics, GenomeWideAssociation
Encoding: latin1
BuildVignettes: true
VignetteBuilder: knitr

[bioc-issue-bot]

A reviewer has been assigned to your package. Learn what to expect during the review process.

IMPORTANT: Please read the instructions for setting up a push hook on your repository, or further changes to your repository will NOT trigger a new build.

[mtmorgan]

Please update your package to re-use appropriate Bioconductor data representations such as GenomicRanges and SummarizedExperiment, as appropriate, for all user-facing functions. This will make your package more robust and interoperable.

[bioc-issue-bot]

Dear Package contributor,

This is the automated single package builder at bioconductor.org.

Your package has been built on Linux, Mac, and Windows.

On one or more platforms, the build results were: "ERROR". This may mean there is a problem with the package that you need to fix. Or it may mean that there is a problem with the build system itself.

Please see the build report for more details.

[Kayla-Morrell]

Hello @isubirana,

I wanted to check in and see if there has been any progress made towards resolving the issue above from @mtmorgan.

Thanks, Kayla

[isubirana]

Hello @mtmorgan.

I am working on it. But still I have not solved all the issues. I will let you know any advance we do or questions we may have as soon as possible.

Regards.

Isaac.

[Kayla-Morrell]

Hello @isubirana - I am changing the tag of this package to inactive since there have been no changes made since the end of April. We normally like to see changes/improvements to a package within a few weeks to know they are actively being worked on. When you have implemented the necessary changes and are ready for a review please comment back here to ask that the issue be reopened.

Thank you, Kayla

[bioc-issue-bot]

This issue is being closed because there has been no progress for an extended period of time. You may reopen the issue when you have the time to actively participate in the review / submission process. Please also keep in mind that a package accepted to Bioconductor requires a commitment on your part to ongoing maintenance.

Thank you for interest in Bioconductor.

[isubirana]

My apologyses for not responding during this period. After some attemps, we couldn't solve the problems and do modifications required in order to submit the package to Bioconductor repository. I hope we are able to adapt the package to Bioconductor requirements soon.

Regards,

Isaac Subirana.