It has been awhile since I last pushed onto the master branch. I thought now would be a good time since my update to Rbowtie2 was recently accepted and I have gotten some initial positive feedback from Brie. This push makes changes to almost every function, whether it be in documentation or code or both. The most significant changes occur in the download_refseq and metascope_id function. I have also added index, align, and filter functions that integrate bowtie2.
I couldn't directly merge the latest commits made to the main branch to my developmental branch due to their being a significant divergence between the changed files on both branches. I have instead added those changes manually to my branch so there should be no issue with merging.
The current known issues that are still unresolved in my version of the package is that the vignette has to be updated.
It has been awhile since I last pushed onto the master branch. I thought now would be a good time since my update to Rbowtie2 was recently accepted and I have gotten some initial positive feedback from Brie. This push makes changes to almost every function, whether it be in documentation or code or both. The most significant changes occur in the download_refseq and metascope_id function. I have also added index, align, and filter functions that integrate bowtie2.
I couldn't directly merge the latest commits made to the main branch to my developmental branch due to their being a significant divergence between the changed files on both branches. I have instead added those changes manually to my branch so there should be no issue with merging.
The current known issues that are still unresolved in my version of the package is that the vignette has to be updated.