eggd_generate_fusion_workbook (DNAnexus Platform App)

What does this app do?

Collates Fusion candidates and associated metadata from STAR-Fusion, FusionInspector and FastQC per run, then formats and generate a fusion workbook with collated data

What inputs are required for this app to run?

• -istarfusion_files : An array of DNAnexus file IDs of STAR-Fusion's prediction files
• -ifusioninspector_files : An array of DNAnexus file IDs of FusionInspector's output files
• -ifastqc_data: The DNAnexus file ID of FASTQC metrics file
• -iSF_previous_runs_data : The DNAnexus file ID of a static file containing historical STAR-Fusion data
• -iFI_previous_runs_data : The DNAnexus file ID of a static file containing historical FusionInspector data

How does this app work?

• Parses all inputs and format data according to structure of source data
• Writes formated data into a worksheet for each data source
• Writes a summary sheet using selected data from the different sources

What does this app output?

• A Fusion Workbook named as {project_name}_fusion_workbook.xlsx

TODO

• Add unit tests
• optimise reading of large dx files
• add more validations to parser module