PRS + PWCC Exploratory Analysis
Markus Min
2025-05-20
This page contains exploratory analysis for the trawl data from the Pre-Recruit and Pacific Whiting Conservation Cooperative surveys. The PWCC survey covered our study area from 2005-2009, and the pre-recruit survey covers the years 2011-2024 (excluding 2012 and 2020).
Data Overview
We will first explore the most common and most abundant taxa in this dataset.
The comment field in this dataset are typically used to note 1) details about the data collection (e.g., “2 unmeasured”), 2) further details on the composition of that particular taxon in that haul (e.g., “12 wild; 24 hatchery”), or a more specific species ID of that taxon (e.g., “Benthocodon pedunculata” when the taxon is “Hydrozoa”).
## [1] 79476| taxon | mean_number | sd_number |
|---|---|---|
| Euphausiidae | 18648.6 | 67731.5 |
| Pyrosoma atlanticum | 1330.3 | 6488.2 |
| Salpidae | 836.7 | 3066.2 |
| Pleurobrachia | 359.7 | 1743.8 |
| Ctenophora | 214.8 | 2307.1 |
| Stenobrachius leucopsarus | 181.6 | 1223.4 |
| Cymbuliidae | 160.1 | 892.4 |
| Sergestidae | 119.8 | 546.4 |
| Merluccius productus | 110.6 | 1009.8 |
| Pandalus jordani | 104.8 | 823.1 |
| taxon | n | prop_samples |
|---|---|---|
| Euphausiidae | 220 | 0.79 |
| Aequorea victoria | 155 | 0.56 |
| Glyptocephalus zachirus | 150 | 0.54 |
| Citharichthys sordidus | 147 | 0.53 |
| Citharichthys stigmaeus | 143 | 0.51 |
| Tarletonbeania crenularis | 112 | 0.40 |
| Abraliopsis felis | 108 | 0.39 |
| Salpidae | 108 | 0.39 |
| Praya spp. | 107 | 0.38 |
| Cymbuliidae | 104 | 0.37 |
| common_name | mean_number | sd_number |
|---|---|---|
| NORTH PACIFIC HAKE | 105.0 | 1324.9 |
| LANTERNFISH | 56.1 | 240.3 |
| PACIFIC HERRING | 27.3 | 414.4 |
| NORTHERN ANCHOVY | 19.2 | 165.5 |
| SQUID | 15.9 | 64.7 |
| SMELT | 3.7 | 24.2 |
| WHITEBAIT SMELT | 2.5 | 29.1 |
| PACIFIC SARDINE | 2.5 | 15.2 |
| NIGHT SMELT | 2.0 | 18.2 |
| ROCKFISH | 1.5 | 11.5 |
| common_name | n | prop_samples |
|---|---|---|
| NORTH PACIFIC HAKE | 157 | 0.56 |
| SQUID | 140 | 0.50 |
| LANTERNFISH | 102 | 0.36 |
| NORTHERN ANCHOVY | 60 | 0.21 |
| PACIFIC SARDINE | 50 | 0.18 |
| REX SOLE | 48 | 0.17 |
| BUTTER SOLE | 41 | 0.15 |
| ARROWTOOTH FLOUNDER | 38 | 0.14 |
| CANARY ROCKFISH | 38 | 0.14 |
| SLENDER SOLE | 35 | 0.12 |
## # A tibble: 156 × 3
## taxon n prop_samples
## <chr> <int> <dbl>
## 1 Euphausiidae 220 0.791
## 2 Aequorea victoria 155 0.558
## 3 Glyptocephalus zachirus 150 0.540
## 4 Citharichthys sordidus 147 0.529
## 5 Citharichthys stigmaeus 143 0.514
## 6 Tarletonbeania crenularis 112 0.403
## 7 Abraliopsis felis 108 0.388
## 8 Salpidae 108 0.388
## 9 Praya spp. 107 0.385
## 10 Cymbuliidae 104 0.374
## # ℹ 146 more rows## # A tibble: 65 × 3
## common_name n prop_samples
## <chr> <int> <dbl>
## 1 NORTH PACIFIC HAKE 157 0.559
## 2 SQUID 140 0.498
## 3 LANTERNFISH 102 0.363
## 4 NORTHERN ANCHOVY 60 0.214
## 5 PACIFIC SARDINE 50 0.178
## 6 REX SOLE 48 0.171
## 7 BUTTER SOLE 41 0.146
## 8 ARROWTOOTH FLOUNDER 38 0.135
## 9 CANARY ROCKFISH 38 0.135
## 10 SLENDER SOLE 35 0.125
## # ℹ 55 more rows
Plotting distributions of some common taxa
Here are some static maps of common taxa: - Pacific sanddabs (very tasty!) - Citharichthys sordidus
In situ environmental data
Except for 2013, the following environmental data was collected in situ by the PRS:
- Surface Temp (C)
- Surface temp was also collected in 2013
- Temperature (30m C)
- Fluorescence (30m V)
- Salinity (30m PSU)
- Density (30m sigma-theta, kg/m3)
- Dissolved Oxygen (30m ml/l)
Krill investigation
Krill get special treatment in the PRS data, with them being recorded in three separate sheets. These three sheets all sum to the same total number.
Selecting taxa to model
Processing taxa - there are many notes from the spreadsheet that we will use to help us interpret taxon IDs. “*Did not speciate Gonatus after 2019.”
- There are four members of family Gonatidae in the dataset: “Gonatidae”, “Gonatopsis borealis”, “Gonatus onyx”, and “Gonatus spp.”
- There is a clear break in species IDs before and after 2020. What is odd though is that only one member of the genus Gonatus was ever identified before 2019, so it’s confusing that they would note that they stopped identifying to species level?
Our criteria for generating SDMs are 1) data availability and 2) theoretical interactions with juvenile salmon.
Friedman et al. (2018) identified 31 salmon forage species. These taxa were Armhook squid, Arrowtooth flounder, Barracudina, Blacktip squid, Combfish, Dover sole, Lingcod, Market squid, Myctophids, Northern anchovy, Octopus, Pacific hake, Pacific sand lance, Pacific sardine, Pacific tomcod, Painted greenling, Pandalus shrimp, Poacher, Rex sole, Rockfish, Ronquil / prickleback, Sand sole, Sanddab, Sculpin, Sergestid, Shrimp, Slender sole, Smelt, Snailfish, Turbot, and Krill.
Daly et al. (2017) identified common diets in yearling Chinook salmon caught in the JSOES survey. The main taxa were Northern Anchovy, Clupeids, Cottids, Flatfish, Osmerids, Ronquils, Pacific s and lance, rockfishes, Cancer larvae, Euphausiids, Hyperiid amphipods, Non-Cancer crab larvae, and shrimp larvae.
## [1] "Paralepididae" "Zaniolepididae"
## [3] "Ammodytes hexapterus" "Ronquilus / Stichaeidae"
## [5] "Citharichthys spp." "Liparidae"## [1] "Abraliopsis felis" "Aegina citrea"
## [3] "Aequorea victoria" "Agonidae"
## [5] "Agonopsis vulsa" "Allosmerus elongatus"
## [7] "Alosa sapidissima" "Ammodytes spp."
## [9] "Amphipoda" "Anarrhichthys ocellatus"
## [11] "Anoplopoma fimbria" "Aprodon cortezianus"
## [13] "Argentinoidei" "Atheresthes stomias"
## [15] "Aurelia spp." "Bathyagonus nigripinnis"
## [17] "Bathylagidae" "Beringraja binoculata"
## [19] "Beroe spp." "Berryteuthis spp."
## [21] "Brama japonica" "Cancer magister"
## [23] "Cancer spp." "Carinaria spp."
## [25] "Cavoliniidae" "Cephalopoda"
## [27] "Chaetognatha" "Chiroteuthis calyx"
## [29] "Chrysaora fuscescens" "Citharichthys sordidus"
## [31] "Citharichthys stigmaeus" "Clio pyramidata"
## [33] "Clupea pallasii" "Congriscus megastomus"
## [35] "Cottidae" "Crangon spp."
## [37] "Ctenophora" "Cyanea capillata"
## [39] "Cymbuliidae" "Diaphus theta"
## [41] "Doryteuthis opalescens" "Embassichthys bathybius"
## [43] "Engraulis mordax" "Euphausiidae"
## [45] "Gasterosteus aculeatus" "Gastropoda"
## [47] "Glyptocephalus zachirus" "Gonatidae"
## [49] "Gonatopsis borealis" "Gonatus onyx"
## [51] "Gonatus spp." "Hemilepidotus hemilepidotus"
## [53] "Hemilepidotus spinosus" "Hemilepidotus spp."
## [55] "Hexagrammidae" "Hexagrammos decagrammus"
## [57] "Hippoglossoides elassodon" "Hormiphora spp."
## [59] "Hydrozoa" "Hypomesus pretiosus"
## [61] "Icichthys lockingtoni" "Icosteus aenigmaticus"
## [63] "Isopsetta isolepis" "Lepidopsetta bilineata"
## [65] "Lestidiops ringens" "Leuroglossus schmidti"
## [67] "Leuroglossus stilbius" "Liparis fucensis"
## [69] "Liparis spp." "Lipolagus ochotensis"
## [71] "Lyopsetta exilis" "Malacosteidae"
## [73] "Melanostomiidae" "Merluccius productus"
## [75] "Microgadus proximus" "Microstomus pacificus"
## [77] "Mitrocomidae" "Myctophidae"
## [79] "Mysidacea" "Nannobrachium regale"
## [81] "Natantia" "Octopoda"
## [83] "Octopoteuthis deletron" "Odontopyxis trispinosa"
## [85] "Oegopsida" "Oncorhynchus keta"
## [87] "Oncorhynchus kisutch" "Oncorhynchus spp."
## [89] "Oncorhynchus tshawytscha" "Onychoteuthis borealijaponicus"
## [91] "Ophiodon elongatus" "Osmeridae"
## [93] "Oxylebius pictus" "Pandalus jordani"
## [95] "Parophrys vetulus" "Pasiphaea pacifica"
## [97] "Peprilus simillimus" "Periphylla periphylla"
## [99] "Petromyzontidae" "Phacellophora camtschatica"
## [101] "Phosichthyidae" "Phronima spp."
## [103] "Platichthys stellatus" "Plectobranchus evides"
## [105] "Pleurobrachia" "Pleuronectidae"
## [107] "Pleuronichthys decurrens" "Pleuronichthys spp."
## [109] "Polychaeta" "Praya spp."
## [111] "Psettichthys melanostictus" "Pteropoda"
## [113] "Pyrosoma atlanticum" "Ronquilus jordani"
## [115] "Salpidae" "Sardinops sagax"
## [117] "Scomber japonicus" "Scorpaenichthys marmoratus"
## [119] "Scyphozoa" "Sebastes (Black/Yellowtail group)"
## [121] "Sebastes (Copper group)" "Sebastes (Rosy group)"
## [123] "Sebastes alutus" "Sebastes auriculatus"
## [125] "Sebastes babcocki" "Sebastes crameri"
## [127] "Sebastes diploproa" "Sebastes entomelas"
## [129] "Sebastes flavidus" "Sebastes goodei"
## [131] "Sebastes jordani" "Sebastes melanops"
## [133] "Sebastes mystinus" "Sebastes paucispinis"
## [135] "Sebastes pinniger" "Sebastes reedi"
## [137] "Sebastes ruberrimus" "Sebastes rufus"
## [139] "Sebastes saxicola" "Sebastes spp."
## [141] "Sebastes wilsoni" "Sebastes zacentrus"
## [143] "Sebastolobus spp." "Sergestidae"
## [145] "Squalus suckleyi" "Stenobrachius leucopsarus"
## [147] "Streetsia challengeri" "Symbolophorus californiensis"
## [149] "Tactostoma macropus" "Tarletonbeania crenularis"
## [151] "Thaleichthys pacificus" "Thetys vagina"
## [153] "Torpedo californica" "Trachipterus altivelis"
## [155] "Trachurus symmetricus" "Xeneretmus latifrons"## # A tibble: 25 × 3
## taxon n prop_samples
## <chr> <int> <dbl>
## 1 Euphausiidae 220 0.791
## 2 Glyptocephalus zachirus 150 0.540
## 3 Abraliopsis felis 108 0.388
## 4 Sergestidae 74 0.266
## 5 Psettichthys melanostictus 70 0.252
## 6 Microstomus pacificus 69 0.248
## 7 Lyopsetta exilis 63 0.227
## 8 Sebastes spp. 62 0.223
## 9 Engraulis mordax 55 0.198
## 10 Merluccius productus 53 0.191
## # ℹ 15 more rows## [1] "NORTH PACIFIC HAKE" "SQUID" "LANTERNFISH"
## [4] "NORTHERN ANCHOVY" "PACIFIC SARDINE" "REX SOLE"
## [7] "BUTTER SOLE" "ARROWTOOTH FLOUNDER" "CANARY ROCKFISH"
## [10] "SLENDER SOLE" "BARRACUDINA" "SMELT"
## [13] "ROCKFISH" "WIDOW ROCKFISH" "DOVER SOLE"
## [16] "CABEZON" "DARKBLOTCHED ROCKFISH" "YELLOWTAIL ROCKFISH"
## [19] "GREENLING" "KING-OF-THE-SALMON" "SCULPIN"
## [22] "NIGHT SMELT" "PACIFIC HERRING" "BLUE ROCKFISH"
## [25] "PACIFIC SANDLANCE" "POACHER" "BLACK ROCKFISH"
## [28] "MARKET SQUID" "PACIFIC SPINY DOGFISH" "PACIFIC SANDDAB"
## [31] "PACIFIC TOMCOD" "SNAILFISH" "WHITEBAIT SMELT"
## [34] "SHORTBELLY ROCKFISH" "COD" "HUMBOLDT SQUID"
## [37] "SALMON" "SANDDAB" "BOCACCIO"
## [40] "LINGCOD" "MEDUSAFISH" "LAMPREY"
## [43] "TURBOT" "OCTOPUS" "YELLOWMOUTH ROCKFISH"
## [46] "CHILIPEPPER" "CHUM SALMON" "EELPOUT"
## [49] "PACIFIC COD" "PACIFIC SAND SOLE" "SABLEFISH"
## [52] "STRIPETAIL ROCKFISH" "AMERICAN SHAD" "CURLFIN SOLE"
## [55] "DEEP-SEA SMELT" "FISH" "KING SALMON"
## [58] "PACIFIC MACKEREL" "PACIFIC SAURY" "PAINTED GREENLING"
## [61] "PETRALE SOLE" "PLAINFIN MIDSHIPMAN" "RONQUIL"
## [64] "SHRIMP" "SKATE"## [1] "Euphausiidae" "Aequorea victoria"
## [3] "Glyptocephalus zachirus" "Citharichthys sordidus"
## [5] "Citharichthys stigmaeus" "Tarletonbeania crenularis"
## [7] "Abraliopsis felis" "Salpidae"
## [9] "Praya spp." "Cymbuliidae"
## [11] "Pyrosoma atlanticum" "Gonatus onyx"
## [13] "Stenobrachius leucopsarus" "Thetys vagina"
## [15] "Sebastes crameri" "Sebastes pinniger"
## [17] "Diaphus theta" "Phronima spp."
## [19] "Carinaria spp." "Sergestidae"
## [21] "Psettichthys melanostictus" "Lestidiops ringens"
## [23] "Microstomus pacificus" "Lyopsetta exilis"
## [25] "Sebastes spp." "Sebastes spp."
## [27] "Hormiphora spp." "Chiroteuthis calyx"
## [29] "Engraulis mordax" "Sebastes jordani"
## [31] "Merluccius productus" "Clupea pallasii"
## [33] "Phacellophora camtschatica" "Sebastes entomelas"
## [35] "Doryteuthis opalescens" "Atheresthes stomias"
## [37] "Osmeridae" "Chrysaora fuscescens"
## [39] "Isopsetta isolepis" "Pleurobrachia"
## [41] "Gonatopsis borealis" "Gonatus spp."
## [43] "Sebastes flavidus" "Symbolophorus californiensis"
## [45] "Icichthys lockingtoni" "Cancer magister"
## [47] "Amphipoda" "Lipolagus ochotensis"
## [49] "Microgadus proximus" "Sebastes reedi"
## [51] "Pandalus jordani" "Sardinops sagax"
## [53] "Sebastes paucispinis" "Allosmerus elongatus"
## [55] "Beroe spp." "Hemilepidotus spp."
## [57] "Onychoteuthis borealijaponicus" "Ronquilus jordani"
## [59] "Thaleichthys pacificus" "Trachipterus altivelis"
## [61] "Aurelia spp." "Octopoda"
## [63] "Sebastes mystinus" "Agonopsis vulsa"
## [65] "Parophrys vetulus" "Hippoglossoides elassodon"
## [67] "Liparis fucensis" "Hydrozoa"
## [69] "Ctenophora" "Sebastes melanops"
## [71] "Pleuronichthys decurrens" "Sebastes saxicola"
## [73] "Oegopsida" "Pteropoda"
## [75] "Sebastes (Copper group)" "Sebastes alutus"
## [77] "Sebastes goodei" "Tactostoma macropus"
## [79] "Trachurus symmetricus" "Ammodytes spp."
## [81] "Octopoteuthis deletron" "Oncorhynchus tshawytscha"
## [83] "Scorpaenichthys marmoratus" "Crangon spp."
## [85] "Liparis spp." "Mitrocomidae"
## [87] "Sebastes (Black/Yellowtail group)" "Streetsia challengeri"
## [89] "Aegina citrea" "Bathylagidae"
## [91] "Peprilus simillimus" "Pleuronectidae"
## [93] "Sebastes wilsoni" "Clio pyramidata"
## [95] "Lepidopsetta bilineata" "Anoplopoma fimbria"
## [97] "Cottidae" "Embassichthys bathybius"
## [99] "Oncorhynchus keta" "Scyphozoa"
## [101] "Sebastes babcocki" "Anarrhichthys ocellatus"
## [103] "Leuroglossus stilbius" "Malacosteidae"
## [105] "Scomber japonicus" "Sebastes diploproa"
## [107] "Squalus suckleyi" "Chaetognatha"
## [109] "Congriscus megastomus" "Cyanea capillata"
## [111] "Gastropoda" "Icosteus aenigmaticus"
## [113] "Myctophidae" "Oncorhynchus spp."
## [115] "Ophiodon elongatus" "Petromyzontidae"
## [117] "Sebastes (Rosy group)" "Sebastolobus spp."
## [119] "Argentinoidei" "Bathyagonus nigripinnis"
## [121] "Berryteuthis spp." "Cephalopoda"
## [123] "Gasterosteus aculeatus" "Hexagrammos decagrammus"
## [125] "Hypomesus pretiosus" "Melanostomiidae"
## [127] "Nannobrachium regale" "Natantia"
## [129] "Odontopyxis trispinosa" "Pasiphaea pacifica"
## [131] "Sebastes ruberrimus" "Sebastes zacentrus"
## [133] "Xeneretmus latifrons" "Agonidae"
## [135] "Alosa sapidissima" "Aprodon cortezianus"
## [137] "Beringraja binoculata" "Brama japonica"
## [139] "Cancer spp." "Cavoliniidae"
## [141] "Gonatidae" "Hemilepidotus hemilepidotus"
## [143] "Hemilepidotus spinosus" "Hexagrammidae"
## [145] "Leuroglossus schmidti" "Mysidacea"
## [147] "Oncorhynchus kisutch" "Oxylebius pictus"
## [149] "Oxylebius pictus" "Periphylla periphylla"
## [151] "Phosichthyidae" "Platichthys stellatus"
## [153] "Plectobranchus evides" "Pleuronichthys spp."
## [155] "Polychaeta" "Sebastes auriculatus"
## [157] "Sebastes rufus" "Torpedo californica"## taxon group
## 1 Gonatus spp. armhook squid
## 2 Atheresthes stomias flatfishes
## 3 Paralepididae barracudina
## 4 Abraliopsis felis blacktip squid
## 5 Zaniolepididae combfish
## 6 Microstomus pacificus flatfishes
## 7 Ophiodon elongatus lingcod
## 8 Doryteuthis opalescens market squid
## 9 Myctophidae myctophids
## 10 Engraulis mordax northern anchovy
## 11 Octopoda octpus
## 12 Merluccius productus hake
## 13 Ammodytes hexapterus Pacific sand lance
## 14 Sardinops sagax Pacific sardine
## 15 Microgadus proximus Pacific tomcod
## 16 Oxylebius pictus combfish
## 17 Pandalus jordani Pandalus shrimp
## 18 Agonidae poachers
## 19 Glyptocephalus zachirus flatfishes
## 20 Sebastes spp. rockfishes
## 21 Ronquilus / Stichaeidae ronquil/prickleback
## 22 Psettichthys melanostictus flatfishes
## 23 Citharichthys spp. flatfishes
## 24 Cottidae sculpins
## 25 Sergestidae sergestid shrimp
## 26 Natantia shrimp
## 27 Lyopsetta exilis flatfishes
## 28 Osmeridae osmerids
## 29 Liparidae snailfishes
## 30 Pleuronichthys spp. flatfishes
## 31 Euphausiidae krill
## 32 Lestidiops ringens barracudina
## 33 Oxylebius pictus combfish
## 34 Ammodytes spp. Pacific sand lance
## 35 Ronquilus jordani ronquil/prickleback
## 36 Plectobranchus evides ronquil/prickleback
## 37 Citharichthys sordidus flatfishes
## 38 Citharichthys stigmaeus flatfishes
## 39 Liparis fucensis snailfishes
## 40 Liparis spp. snailfishes
## 41 Sebastes (Black/Yellowtail group) rockfishes
## 42 Sebastes (Copper group) rockfishes
## 43 Sebastes (Rosy group) rockfishes
## 44 Sebastes alutus rockfishes
## 45 Sebastes auriculatus rockfishes
## 46 Sebastes babcocki rockfishes
## 47 Sebastes crameri rockfishes
## 48 Sebastes diploproa rockfishes
## 49 Sebastes entomelas rockfishes
## 50 Sebastes flavidus rockfishes
## 51 Sebastes goodei rockfishes
## 52 Sebastes jordani rockfishes
## 53 Sebastes melanops rockfishes
## 54 Sebastes mystinus rockfishes
## 55 Sebastes paucispinis rockfishes
## 56 Sebastes pinniger rockfishes
## 57 Sebastes reedi rockfishes
## 58 Sebastes ruberrimus rockfishes
## 59 Sebastes rufus rockfishes
## 60 Sebastes saxicola rockfishes
## 61 Sebastes spp. rockfishes
## 62 Sebastes wilsoni rockfishes
## 63 Sebastes zacentrus rockfishes
## 64 Sebastolobus spp. rockfishes
## 65 Tarletonbeania crenularis myctophids
## 66 Stenobrachius leucopsarus myctophids
## 67 Diaphus theta myctophids
## 68 Nannobrachium regale myctophids
## 69 Lipolagus ochotensis bathylagids
## 70 Bathylagidae bathylagids
## 71 Leuroglossus stilbius bathylagids
## 72 Leuroglossus schmidti bathylagids
## 73 Gonatus onyx armhook squid
## 74 Gonatopsis borealis armhook squid
## 75 Gonatidae armhook squid
## 76 Hemilepidotus spp. poachers
## 77 Agonopsis vulsa poachers
## 78 Scorpaenichthys marmoratus sculpins
## 79 Bathyagonus nigripinnis poachers
## 80 Odontopyxis trispinosa poachers
## 81 Xeneretmus latifrons poachers
## 82 Hemilepidotus hemilepidotus poachers
## 83 Hemilepidotus spinosus poachers
## 84 Crangon spp. crangon shrimp
## 85 Streetsia challengeri amphipods
## 86 Mysidacea mysid shrimp
## 87 Cancer spp. Cancer crabs
## 88 Phronima spp. amphipods
## 89 Clupea pallasii clupeids
## 90 Isopsetta isolepis flatfishes
## 91 Cancer magister Cancer crabs
## 92 Amphipoda amphipods
## 93 Allosmerus elongatus osmerids
## 94 Thaleichthys pacificus osmerids
## 95 Parophrys vetulus flatfishes
## 96 Hippoglossoides elassodon flatfishes
## 97 Pleuronichthys decurrens flatfishes
## 98 Pleuronectidae flatfishes
## 99 Lepidopsetta bilineata flatfishes
## 100 Alosa sapidissima clupeids
## 101 Embassichthys bathybius flatfishes
## 102 Argentinoidei osmerids
## 103 Hypomesus pretiosus osmeridsObservations of PWCC species identifications:
- There aren’t any gelatinous zooplankton IDs. There are also aren’t any krill (which we know they must have caught). Probably were focused on identifying squids and fishes
- John Field noted that they were hake fishermen, so the IDs for many taxa are spotty. But if what we care about is characterizing the overall forage base, and if “flatfishes” is good enough for our purposes, then these IDs should be fine.
- There are some IDs that are very coarse in the PWCC data, for
example “squid”. They also ID “market squid” separately. So perhaps it
would be safe to assume “squid” are all squid that aren’t market squid.
But maybe there are temporal patterns in species IDs?
- In the code below, there’s nothing that stands out drastically
Exploration of broad groups
Here, we will look at patterns in functional groups of salmon forage taxa (e.g., rockfishes, flatfishes, etc.)
##
## blacktip squid crangon shrimp hake krill
## 1 1 1 1
## lingcod market squid mysid shrimp northern anchovy
## 1 1 1 1
## octpus Pacific sardine Pacific tomcod Pandalus shrimp
## 1 1 1 1
## sergestid shrimp shrimp barracudina Cancer crabs
## 1 1 2 2
## clupeids Pacific sand lance sculpins amphipods
## 2 2 2 3
## combfish ronquil/prickleback snailfishes armhook squid
## 3 3 3 4
## bathylagids myctophids osmerids poachers
## 4 5 5 8
## flatfishes rockfishes
## 16 25
##
## barracudina bathylagids clupeids hake
## 1 1 1 1
## lingcod market squid myctophids northern anchovy
## 1 1 1 1
## octopus Pacific sandlance Pacific sardine Pacific tomcod
## 1 1 1 1
## poachers ronquil/prickleback shrimp snailfishes
## 1 1 1 1
## squid cod sculpins osmerids
## 1 2 2 4
## flatfishes rockfishes
## 11 12
