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pbs-assess / dogfish-assess

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Model exploration #11

Closed quang-huynh closed 5 months ago

quang-huynh commented 7 months ago

Identify and justify best index
Estimate rec devs
Use SYN sized-based indices?
Change in fecundity?
Change in recruit survival?
Dome selectivity in the surveys

quang-huynh commented 7 months ago

Fitted models with IPHC only, or SYN only
Rec dev do not affect SSB trend because there is no information in the length data to inform cohort strength
Little dome estimated in the SYN comps. A little more in the IPHC survey. Neither affects SSB a whole lot

quang-huynh commented 7 months ago

Reporting some notes on HBLL selectivity:

HBLL OUT (14/0 with squid) uses smaller hooks than IPHC (16/0 with chum). HBLL INS uses (13/0 with squid) and is probably similar to HBLL OUT
Comparison of HBLL OUT vs IPHC in SOG shows larger females with IPHC, with more similar size range in males between the two surveys
IPHC catches the smallest fish (40 cm) that are not in HBLL and SYN
Easiest assumption is to mirror HBLL OUT to SYN

quang-huynh commented 7 months ago

[x] Update 3CD catch
[x] Update residual SD in length-at-age so that it reduces with age.
[x] Explore alternative growth curve estimated from US assessment.
[x] Evaluate effect of previous two on maturity/fecundity at age schedule
[ ] Explore effect of < 100% discard mortality. What do managers assume?
[x] Mirror selectiivty of HBLL to IPHC based on comparison of sets in 4B
[x] Sensitivitiy analysis
[x] Plot zfrac vs. depletion in Set A models (harvest-only effects)
[ ] Density-dependent M (cannibalism as a mechanism)
[ ] Explore priors for steepness in literature
[x] Sensitivity to growth and fecundity schedule
[ ] Plot abundance at length. Surveys see plenty of 100+ cm females