A set of cloud-based analysis scripts to run on ERCC Multilab study samples.
We will prototype using NIST in-house data from the 'Magic Mix V1' HiSeq run [as it has SIRVs]
The intention is to automate the analysis such that it can be easily reproduced, as we will likely be doing similar or identical work 20+ times in the future.
Takes as input a directory full of fastq files from a study & sends to 7BridgesCloud account for ERCC-consortium analysis (Steps 2-10)
[input makes changes to the RMD;may convert to user-defined input for production?]