Usage

To utilize any of the BASH or Python scripts provided with the tools (i.e. the files ending with .sh or .py, you will need to prefix the script name with ${HPC_RATOOLS_DIR}/

For example, a preprocess.sh command might look something like:

${HPC_RATOOLS_DIR}/preprocess.sh \                                                                  
   m64012_191221_044659.subreads.bam \                                                             
   m64012_191221_044659.adapters.fasta \                                                           
   /data/reference/genomes/human/hs37d5/hs37d5.fa \                                                
   ./output \                                                                                         
   16 \                                                                                            
   16 \                                                                                            
   local