Relative Abundance and Enrichment Calculation by Region of Interest (ROI) - AbXtract

Category Paths

  • Solution-based/Biologics/Antibody Design

  • Role-based/Bioinformatician

  • Role-based/Biologist

  • Product-based/AbXtract

Description

This FLOE will use the region of interest (ROI) and early and late round information to calculate the relative fold enrichment based on % representation in the population. Unlike the NGS Pipeline FLOE this FLOE does not consider barcode_group or barcode_round. An alternative approach to just calculating enrichment/relative abundanceCan with the barcode_group or barcode_round, use the NGS Pipeline FLOE, set the cluster to ‘Unique Only’ and set the region of interest (ROI) to user preference.

Parameter title in user interface (promoted name)

  • Output CSV Filename (file_name) type: file_out: All records are written to downstream csv file, must contain the *.csv extension
    Default: enrich.csv

Parameter title in user interface (promoted name)

  • Keep Only Functional Sequences (filter_functional) type: boolean: Eliminates non-functional sequences, truncations, stop-codons, frame-shifts
    Default: True

Parameter title in user interface (promoted name)

  • Region to Consider for Enrichment (roi) type: string: Indicate the region of interest that should be considered for the enrichment
    Default: CDR3 Chain 2
    Choices: Merged CDRs, CDR3 Chain 1, CDR3 Chain 2, HCDR3 and LCDR3, Full-Length

Parameter title in user interface (promoted name)

  • Output Name of Dataset with Enrichment Calculation (data_out) type: dataset_out: Dataset name of sequences with enrichment and percent final calculation
    Default: enrich

Parameter title in user interface (promoted name)

  • Failed Dataset Output Name (data_out) type: dataset_out: Contains failed records from both upstream and downstream Processes
    Default: problematic.enrich_floe