Overview

Primary workflow components

The Echopop data workflow consists of 5 primary components. The documentation is organized with roughly the same order to explain each component in detail.

• Data ingestion

  • Set up paths

  • Ingest NASC, region, haul data

  • Ingest biological data

  • Load stratification schemes

  • Load kriging parameters

• Transect interval-based data processing

  • Stratify ingested data

  • Compute length-weight relationship

  • Compute number proportion

  • Compute weight proportion

• Biological estimates (transect interval-based)

  • Compute various biological quantities with following sequence (see flow diagram below):

    • NASC (\(S_A\))

    • abundance (\(N\))

    • biomass density (\(\rho_B\))

    • biomass (\(B\))

  • Distribute biological estimates across (sex, length, age) for each transect interval

• Kriging

  • Coordinate transformation

  • Variogram analysis and fitting

  • Perform kriging on biomass density: interval-based biomass density (\(\rho_B\)) → kriged biomass density (\(\hat{\rho}_B\))

  • Derive/back-calculate other biological estimates with the following sequence (see flow diagram below):

    • kriged biomass density (\(\tilde{\rho}_B\))

    • kriged biomass (\(\tilde{B}\))

    • kriged abundance (\(\tilde{N}\))

    • kriged NASC (\(\tilde{S}_\text{A}\))

  • Distribute kriged biological estimates across (sex, length, age)

• Stratified analysis

  • Perform Jolly-Hampton analysis using transect-based data and kriged data

Data flow diagram