renamed SubmitIDR to PreprocessIDR now beta. Optional TODOs: 1 idr_threshold override; 2 Fan filter/sort jobs with Dummy analysis and JobFactory; 3 Pick up peak QC failures using accu, status or tracking DB table
Added idr_peaks analysis and now batch_flows max_peaks for IDR based peak filtering
Now optionally takes ResultSet, peak_analysis, max_peaks and filter_max_peaks params
Now no longer dependant on ResultSet param, moved a lot to PreprocessIDR. Ready for testing
PreprocessIDR now beta and ready for testing. Optional TODOs: 1 idr_threshold override; 2 Fan filter/sort jobs with Dummy analysis and JobFactory; 3 Pick up peak QC failures using accu, status or tracking DB table
Added very alpha version of PostprocessIDR. TODO Build output id; Add IDR based QC
Updated to use PreprocessIDR. Removed DefineReplicateDataSet and added peak_analysis to run_SWEmbl_R0005_replicate to allow running without FeatureSet
Change name of post-IDR peak analysis to include "IDR"
minor comments