Modifications for curta + daphnia pulex genome #79
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- Added #SBATCH qos option - Updated #SBATCH partition option - Updated modules to be loaded to align with available modules on Curta - Set path to DM.R script - Updated genome to Dpulex - Removed --adjustCovariate option - Updated --testCovariate value from Diagnosis to Group - Updated --sexCheck to FALSE (no gender column in data, all females)
- Added AnnotationDbi comment line at top of file - Added Daphnia pulex organism - Currently implemented in such a way that the BSgenome library must already be installed, and the TxDb and org.db objects must be located in the DMRichR/exec folder, to be read by AnnotationDbi::loadDb()
- Added installation of AnnotationDbi package from Bioconductor - Added Dpulex genome to function
- Added AnnotationDbi and its loadDb function
- Added AnnotationDbi in Imports
- Added "Dpulex" where needed
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Apologies. Meant to merge on my own fork. Feel free to delete this. |
wassimsalam01
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