BioDjinn
Data scenario matrix
Case
|
SA [m2]
SampledArea
SV [m3]
SampledVolume
|
RA [m2]
ReferenceArea
RV [m3]
ReferenceVolume
|
N [-]
Number
|
A [N/RA]
A [N/RV]
Abundance
|
PA [0,1]
Presence/Absence
|
Rep [-]
Replicates
|
GSA [m2]
Gear.Area
|
Products
|
Notes
|
0a
|
(+)
|
|
+
|
|
|
1
|
(+)
|
ABCD
|
- Situation: 1 sample, 1 replicates * sampled_ area
- Rules R1, R2 and R3 apply
- Formula F1 or F2 may have to be used
|
0b
|
(+)
|
|
+
|
|
|
n
|
(+)
|
ABCD
|
- Situation: 1 sample, n replicates * sampled_ area (total sum)
- Rules R1, R2 and R3 apply
- Formula F1 or F2 may have to be used
- If necessary, consider F3 for scientific analyses
|
0c
|
|
+
|
+
|
+
|
|
|
(+)
|
ABCD
|
|
1a
|
|
+
|
|
+
|
|
|
+
|
ABCD
|
- Formula F5 must be applied
|
1b
|
|
+
|
|
+
|
|
|
|
A
|
|
2
|
|
|
+
|
|
|
|
|
C
|
- Possible GSA will not be tested anyway
- GSA is allowed
|
3
|
(+)
|
|
|
|
+
|
|
(+) |
B
|
- Rules R1, R2 and R3 apply
- Formula F1 or F2 may have to be used
|
4
|
|
|
|
|
+
|
|
|
D
|
- GSA is allowed
- RA is allowed
|
General rules
(R1) SA and/or GSA must be given.
(R2)
If SA is given, it takes precedence over GSA.
(R3) If SA is not given, GSA must be calculated (see Formulas F1 and F2).
(R4) If replicates per sample are given, SA or GSA represents the sampled
area per replicate.
(R5) If GSA is given, calculated SA (see Formula F4) is tested against GSA
to check if SA and GSA are equal. The test is performed for all gears
except trawls.
General formulas
(F1) GSA (for grab samples) = grab length * grab width
(F2) GSA (for trawl samples) = trawl gear width * sampling distance;
sampling distance = towed speed * towed time or sampling distance is
defined by latitude/longitude coordinates of sampling start and end (these
formulas are generally valid for all towed gears)
(F3) Total SA/sample = n rep * SA; total GSA/sample = n rep * GSA
(F4) SA = (N*RA)/A
(F5) N = (GSA*A)/RA
Parameters
SA
|
Sampled Area
|
defined in sample.sampled_area |
SV
|
Sampled Volume
|
defined in sample.sampled_vol |
RA
|
Reference Area |
defined in sample.reference_area |
RV
|
Reference Volume |
defined in sample.reference_vol |
N
|
Number |
Count of individuals defined in biota.number
|
A
|
Abundance |
Density of individuals defined in biota.abundance
Calculation of abundance:
A=(N*RA)/SA
or
A=(N*RV)/SV
|
PA
|
Presence/Absence |
Presence/absence of individuals defined in
biota.presence_absence |
Rep
|
Replicates
|
Number of replicates per sample defined in
sample.replicates
|
GSA
|
Gear Sampled Area
|
Sampled area calculated from the information in the
gear lookup table. There are several ways to calculate the area for
different gear categories (see below for more information).
|
Products
A
|
Abundance |
biomass
|
B
|
Biodiversity-3 |
relationship N.spec - area (number of
species to area) |
C
|
Biodiversity-2 |
relationship N.spec - N.ind (number of species to
number of individuals) |
D
|
Biodiversity-1 |
N.spec (number of species) |
Gear categories
Allowed gear categories: grab, trap, sensor, scrape, video, trawl, rocks, census, remote sensing
dive
Discarding A in Scenario 0a/0b
Do not record A at ingest, because it can be calculated from
SA and N.
Types of calculating gear sampled area (GSA)
grab/trap/sensor/scrape/rocks/dive/video/census/remote sensing
- sample.replicates * gear.area
trawl
Sampled Area is defined or calculated in one of following ways:
- 1) direct (sample.sampled_area) or
- 2) calculable through three possible options:
- a) sample.sampling_speed multiplied by sample.time_start/end or
- b) sample.sampling_distance or
- c) sample.start_lat/lon, sample.end_lat/lon
Result/value of a), b) or c) multiplied by gear.width (net width)
All testing rules
Violation of the following rules leads to the triggering of a warning:
Gear.SamplingUnit is set to 'both'
- If Gear.SamplingUnit is set to both every entry in
Sampled/Reference-Area/Volume fields is answered with a warning. It is
always better to decide.
Violation of the following rules leads to the triggering of an error:
Number
- Number (N) may only be a float if a biota.subtotal_factor or
sample.subsample_share exists.
Abundance
- Abundance (A) must not exist alone.
Number, abundance or presence/absence
- Number (N) and presence/absence (PA) cannot be set at same time
- Abundance (A) and presence/absence (PA) cannot be set at same time
- Number (N) and abundance (A) must be >= 0
- Presence/Absence (PA) must be 0/1
Sampled area and reference area
- Sampled area (SA) and reference area (RA) may only be set alternately
or not at all.
Area/Volume and Gear.SamplingUnit
- If Sampled Area or ReferenceArea is set in Sample the corresponding
Gear.SamplingUnit has to be set to area/both
- If Sampled Volume or ReferenceVolume is set in Sample the
corresponding Gear.SamplingUnit has to be set to vol/both
Sampled volume and reference volume
- Sampled volume (SV) and reference volume (RV) may only be set
alternately or not at all.
Gear pretest
- grab/trap/dive/sensor/video/census/remote sensing: mesh size cannot be set
- trawl: area cannot be set
trawl: Sampling distance
- directly sample.sampling_distance or mutual excluded
- calculated: sample.sampling_speed multiplied by sample.time_start/end
Testing the calculation of the gear sampled area
a) Gear sampled area (GSA) and (directly defined) sampled area (SA)
grab/trap/sensor/scrape/rocks/dive/video
- If sample.sampled_area is given and sampled_area is calculable via the
gear lookup table, both have to be equal
- sample.sampled_area <=> sample.replicates * gear.area
trawl
- The calculation of sampled area (SA) is allowed in different ways.
- Different results depending on the calculation of SA do lead to an
error message.
b) Gear sampled area (GSA) with given reference area (RA), number (N),
abundance (A)
grab/trap/sensor/scrape/rocks/dive/video and Scenario 0c
- Given: GSA and RA, N, A
- This equation must apply: GSA=(N*RA)/A
c) Gear sampled area (GSA) with given reference area (RA), number (N),
replicate (Rep)
Replicates
- If Rep is not given, the default is 1
- Rep has to be integer
trap time and sampled area
- For gear type "trap" the time under water (sample.time_start/stop)
must be taken into account for the area calculation.