Diversity Calculation - Shannon Alpha and Beta diversity

http://bpmsg.com Version 29.12.12

Dataset 1 BPMSG Diversity Analysis -Shannon Alpha and Beta Partitioning

Author: Klaus D Goepel
Worksheet input Version: 5.7.2020
http://bpmsg.com
Input Data Diversity (Shannon - ln) 1
D Homogeneity Measures AHP
No of Classes 6 a-Diversity 0.269 1.308 MacArthur M 0.2278 scale max 9
No of Samples 5 g-Diversity 1.748 5.743 rel. Homogeneity 1S 3.5% Dg-max 6.00
b-Diversity 1.479 4.390 AHP consensus S* -78.9% Da-min 3.41
for AHP samples only

Table 1: Shannon Entropy, Equitability, Simpson and Hill numbers per sample Table 2:Top 20 pairs of most similar samples
Sample No Shannon Equi- Simpson Gini- Hill Numbers No S Sample Sample
a-Entropy tability Dominance Simpson 1
D 2
D 100% (1) (2) a b row i j
sample-1 1 0.0000 0% 1.0000 0.0% 1.00 1.00 1 #N/A #N/A #N/A #N/A #N/A #N/A #N/A #N/A
sample-2 2 0.6931 39% 0.5000 50.0% 2.00 2.00 2 0% sample-4 sample-5 0.16 0.16 1 4 5
sample-3 3 0.3251 18% 0.8200 18.0% 1.38 1.22 3 #N/A #N/A #N/A #N/A #N/A #N/A #N/A #N/A
sample-4 4 0.3251 18% 0.8200 18.0% 1.38 1.22 4 #N/A #N/A #N/A #N/A #N/A #N/A #N/A #N/A
sample-5 5 0.0000 0% 1.0000 0.0% 1.00 1.00 5 #N/A #N/A #N/A #N/A #N/A #N/A #N/A #N/A
6 6 #N/A #N/A #N/A #N/A #N/A #N/A #N/A #N/A
7 7 #N/A #N/A #N/A #N/A #N/A #N/A #N/A #N/A
8 8 #N/A #N/A #N/A #N/A #N/A #N/A #N/A #N/A
9 9 #N/A #N/A #N/A #N/A #N/A #N/A #N/A #N/A
10 10 #N/A #N/A #N/A #N/A #N/A #N/A #N/A #N/A
11 11
12 12
13 13
14 14
15 15
16 16
17 17
18 18
19 19
20 20
21 21
22 22
23 23
24 24
83% 0% 0%
min: -16% 10 total pairs

RS-RHQS Goepel 752379362.xlsx

 Diversity Calculation - Shannon Alpha and Beta diversity
http://bpmsg.com Version 29.12.12

Dataset 1 Weight: 0 Sort: 3 1 Parameter: 25 Alpha

sample-1

Err:504

Err:504

Err:504

Err:504
Shannon
a -Diversity 1 Err:504 Err:504 Err:504 Err:504
0.27 0 ### ### ### ###
1.31 1.0 Err:504 Err:504 Err:504 Err:504

sample-1 1 0.00 Err:504 Err:504 Err:504 Err:504

Err:504 ### Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 ### Err:504 Err:504
Err:504 ### Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 ### Err:504 Err:504
Err:504 ### Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 ### Err:504 Err:504
Err:504 ### Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 Err:504 ### Err:504 Err:504
Err:504 Err:504 Err:504 Err:504
Err:504 Err:504 Err:504 Err:504
Err:504 Err:504 Err:504 Err:504
Err:504 Err:504 Err:504 Err:504
Err:504 Err:504 Err:504 Err:504
Err:504 Err:504 Err:504 Err:504
Err:504 Err:504 Err:504 Err:504
Err:504 Err:504 Err:504 Err:504
Err:504 Err:504 Err:504 Err:504
Err:504 Err:504 Err:504 Err:504
Err:504 Err:504 Err:504 Err:504
Err:504 Err:504 Err:504 Err:504
Err:504 Err:504 Err:504 Err:504
Err:504 Err:504 Err:504 Err:504
Err:504 Err:504 Err:504 Err:504
Err:504 Err:504 Err:504 Err:504
Err:504 Err:504 Err:504 Err:504
Err:504 Err:504 Err:504 Err:504
Err:504 Err:504 Err:504 Err:504
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24
Column Average Err:504 Err:504 Err:504 Err:504 Err:504
exp Err:504 Err:504 Err:504 Err:504 Err:504

RS-RHQS Goepel 752379362.xlsx

 Diversity Calculation - Shannon Alpha and Beta diversity
http://bpmsg.com Version 29.12.12

Table 3: Average Distribution across classes $U$79:$U$84

No Class avg pi rk row Sorted
Diagram 1: Gini Simpson & Shannon Equitability 1 cat-1 20% 1 1 cat-1 20%
2 cat-2 10% Err:504 #N/A #N/A #N/A
60.0%
3 cat-3 20% Err:504 #N/A #N/A #N/A

50.0% 4 cat-4 10% Err:504 #N/A #N/A #N/A

5 cat-5 20% Err:504 #N/A #N/A #N/A

40.0% 6 cat-6 20% Err:504 #N/A #N/A #N/A

7
30.0% Simpson 8
Shannon 9
20.0% 10
11
10.0% 12
13
0.0% 14
15
sample-1
sample-2
sample-3
sample-4
sample-5

16
17
18
19
20

Diagram 2: Proportional Distribution (avg) Diagram 3: Proportional Distribution (sorted)

25%
cat-1 #N/A #N/A
20%
#N/A #N/A #N/A

15%

10%

5%

0%
#N/A
#N/A
#N/A
#N/A
#N/A
cat-1
20%

RS-RHQS Goepel 752379362.xlsx

 1 Title Dataset 1
2 No of Categories 6 Number of classes/categories (2 -20)
3 No of Samples 5 Number of samples (2 - 24)
4 Referenz Row 8 Reference row for input data on this worksheet
5 Reference Column 24 Reference colum for inpur data on this worksheet
Raw input data
1 2 3 4 5 6 7 8 9 10 11
Dataset 1 cat-1 cat-2 cat-3 cat-4 cat-5 cat-6 cat-7 cat-8 cat-9 cat-10 cat-11
1 sample-1 10
2 sample-2 5 5
3 sample-3 1 9
4 sample-4 9 1
5 sample-5 10
6 sample-6
7 sample-7
8 sample-8
9 sample-9
10 sample-10
11 sample-11
12 sample-12
13 sample-13
14 sample-14
15 sample-15
16 sample-16
17 sample-17
18 sample-18
19 sample-19
20 sample-20
21 sample-21
22 sample-22
23 sample-23
24 sample-24
Totals 10 5 10 5 10 10 0 0 0 0 0

Dataset 2 cat-1 cat-2 cat-3 cat-4 cat-5 cat-6 cat-7 cat-8 cat-9 cat-10 cat-11
1 sample-1
2 sample-2
3 sample-3
4 sample-4
5 sample-5
6 sample-6
7 sample-7
8 sample-8
9 sample-9
10 sample-10
11 sample-11
12 sample-12
13 sample-13
14 sample-14
15 sample-15
16 sample-16
17 sample-17
18 sample-18
19 sample-19
20 sample-20
21 sample-21
22 sample-22
23 sample-23
24 sample-24
Totals 0 0 0 0 0 0 0 0 0 0 0
 this cell is the reference
cell for the input data in
sheet calc: here it is
row 8, col 24 (X)
Data for calculation in Sheet Calc (proport
12 13 14 15 16 17 18 19 20
cat-12 cat-13 cat-14 cat-15 cat-16 cat-17 cat-18 cat-19 cat-20 Tot s-sort w 0 cat-1 cat-2
10 1 20% sample-1 100% 0%
10 2 20% sample-2 0% 50%
10 3 20% sample-3 0% 0%
10 4 20% sample-4 0% 0%
10 5 20% sample-5 0% 0%
0 6 sample-6
0 7 sample-7
0 8 sample-8
0 9 sample-9
0 10 sample-10
0 11 sample-11
0 12 sample-12
0 13 sample-13
0 14 sample-14
0 15 sample-15
0 16 sample-16
0 17 sample-17
0 18 sample-18
0 19 sample-19
0 20 sample-20
0 21 sample-21
0 22 sample-22
0 23 sample-23
0 24 sample-24
0 0 0 0 0 0 0 0 0 50 1 500.00%

cat-12 cat-13 cat-14 cat-15 cat-16 cat-17 cat-18 cat-19 cat-20 Tot s-sort wthis cell is the reference
0 cat-1 cat-2
0 1 cell for the input data in
20% sample-1
sheet calc: here it is
0 2 rowsample-2
20% 8, col 24 (X)
0 3 20% sample-3
0 4 20% sample-4
0 5 20% sample-5
0 6 sample-6
0 7 sample-7
0 8 sample-8
0 9 sample-9
0 10 sample-10
0 11 sample-11
0 12 sample-12
0 13 sample-13
0 14 sample-14
0 15 sample-15
0 16 sample-16
0 17 sample-17
 0 18 sample-18
0 19 sample-19
0 20 sample-20
0 21 sample-21
0 22 sample-22
0 23 sample-23
0 24 sample-24
0 0 0 0 0 0 0 0 0 0 1 0.00%
n Sheet Calc (proportional) - this table is read by the calculation sheet
must be 100%
cat-3 cat-4 cat-5 cat-6 cat-7 cat-8 cat-9 cat-10 cat-11 cat-12 cat-13 cat-14 cat-15 cat-16 cat-17 cat-18 cat-19 cat-20
0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0%
0% 50% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0%
10% 0% 0% 90% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0%
90% 0% 0% 10% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0%
0% 0% 100% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0% 0%

cat-3 cat-4 cat-5 cat-6 cat-7 cat-8 cat-9 cat-10 cat-11 cat-12 cat-13 cat-14 cat-15 cat-16 cat-17 cat-18 cat-19 cat-20
must be 100%
check
100%
100%
100%
100%
100%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%

check
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
0%
 input input!$A$1 input!$X$8
No of Cat 6
o of Samples 5
Ref Row 8
Ref Col 24
Table 1: This table has to contain the sample data to be analysed - max 20 samples (rows) and 20 categories (columns)
$AC9:$AC13 Cat Weigth 1 2 3 4 5 6 7 8 9 10 11 12 13 14
sort rank Cat w cat-1 cat-2 cat-3 cat-4 cat-5 cat-6
1 1 sample-1 0.2 100% - - - - - - - - - - - - -
2 2 sample-2 0.2 - 50% - 50% - - - - - - - - - -
3 3 sample-3 0.2 - - 10% - - 90% - - - - - - - -
4 4 sample-4 0.2 - - 90% - - 10% - - - - - - - -
5 5 sample-5 0.2 - - - - 100% - - - - - - - - -
6 6 sample-6 0 - - - - - - - - - - - - - -
7 7 sample-7 0 - - - - - - - - - - - - - -
8 8 sample-8 0 - - - - - - - - - - - - - -
9 9 sample-9 0 - - - - - - - - - - - - - -
10 10 sample-10 0 - - - - - - - - - - - - - -
11 11 sample-11 0 - - - - - - - - - - - - - -
12 12 sample-12 0 - - - - - - - - - - - - - -
13 13 sample-13 0 - - - - - - - - - - - - - -
14 14 sample-14 0 - - - - - - - - - - - - - -
15 15 sample-15 0 - - - - - - - - - - - - - -
16 16 sample-16 0 - - - - - - - - - - - - - -
17 17 sample-17 0 - - - - - - - - - - - - - -
18 18 sample-18 0 - - - - - - - - - - - - - -
19 19 sample-19 0 - - - - - - - - - - - - - -
20 20 sample-20 0 - - - - - - - - - - - - - -
21 21 sample-21 0 - - - - - - - - - - - - - -
22 22 sample-22 0 - - - - - - - - - - - - - -
23 23 sample-23 0 - - - - - - - - - - - - - -
24 24 sample-24 0 - - - - - - - - - - - - - -
1 0.2 0.1 0.2 0.1 0.2 0.2 0 0 0 0 0 0 0 0
0.3219 0.2303 0.3219 0.2303 0.3219 0.3219 0 0 0 0 0 0 0 0

10 $AC38:$AC47 Table 2: Calculation for all pair combinations of categories AHP scale max
rk c cat2 cat1 w 1 2 3 4 5 6 7 8 9 10 11 12 13 14
2 10 4 5 0.2 0 0 0.45 0 0.5 0.05 0 0 0 0 0 0 0 0
Err:504 9 3 5 0.2 0 0 0.05 0 0.5 0.45 0 0 0 0 0 0 0 0
Err:504 8 3 4 0.2 0 0 0.5 0 0 0.5 0 0 0 0 0 0 0 0
Err:504 7 2 5 0.2 0 0.25 0 0.25 0.5 0 0 0 0 0 0 0 0 0
Err:504 6 2 4 0.2 0 0.25 0.45 0.25 0 0.05 0 0 0 0 0 0 0 0
Err:504 5 2 3 0.2 0 0.25 0.05 0.25 0 0.45 0 0 0 0 0 0 0 0
Err:504 4 1 5 0.2 0.5 0 0 0 0.5 0 0 0 0 0 0 0 0 0
Err:504 3 1 4 0.2 0.5 0 0.45 0 0 0.05 0 0 0 0 0 0 0 0
Err:504 2 1 3 0.2 0.5 0 0.05 0 0 0.45 0 0 0 0 0 0 0 0
Err:504 1 1 2 0.2 0.5 0.25 0 0.25 0 0 0 0 0 0 0 0 0 0
0 0 0
0 0
0 0
0 0
0 0
0 0
0 0
0 0
0 0
0 0
0 0
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0 0
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0 0
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 Sort:
1 = sorted by alpha
2 = sorted by homogenity
3 = sorted manually (col B)
-pi*LN(piTable 3: Sorting: 0 - unsorted ###
15 16 17 18 19 20 21 22 23 24 w rel Sort sort= 3 $AA9:$AA13 $BG9:$BG1
alpha exp(H) Simpson w rk-1 rk-2 rk-3 rk-4 no i Cat sort alpha sort sort=4 seq###
- - - - - - 0 1 100.00% -0.6320.322 4 3 1 1 1 1 sample-1 0 1 1
###
- - - - - - 0.693147 2 50.00% -0.6320.322 Err:504 ### 2 1 2 ### Err:504 Err:504 1 2
###
- - - - - - 0.325083 1.38415 82.00% -0.1870.322 Err:504 ### 3 1 3 ### Err:504 Err:504 1 3
###
- - - - - - 0.325083 1.38415 82.00% -0.1870.322 Err:504 ### 4 1 4 ### Err:504 Err:504 1 4
###
- - - - - - 0 1 100.00% -0.6320.322 Err:504 ### 5 1 5 ### Err:504 Err:504 1 5
###
- - - - - - 0 1 0 0 0 6 ###
- - - - - - 0 1 0 0 0 7 ###
- - - - - - 0 1 0 0 0 8 ###
- - - - - - 0 1 0 0 0 9 ###
- - - - - - 0 1 0 0 0 10 ###
- - - - - - 0 1 0 0 0 11 ###
- - - - - - 0 1 0 0 0 12 ###
- - - - - - 0 1 0 0 0 13 ###
- - - - - - 0 1 0 0 0 14 ###
- - - - - - 0 1 0 0 0 15 ###
- - - - - - 0 1 0 0 0 16 ###
- - - - - - 0 1 0 0 0 17 ###
- - - - - - 0 1 0 0 0 18 ###
- - - - - - 0 1 0 0 0 19 ###
- - - - - - 0 1 0 0 0 20 ###
- - - - - - 0 1 0 0 0 21 ###
- - - - - - 0 1 0 0 0 22 ###
- - - - - - 0 1 0 0 0 23 ###
- - - - - - 0 1 0 0 0 24 ###
0 0 0 0 0 0 0.268663 alpha 1.308214 1.609
0 0 0 0 0 0 1.748067 gamma 5.743492 0.772 0.2
1.479405 beta 4.390331 0.228
9 Dg max 6.000 Da min 3.409 Alpha Gamma Beta Horn AHP
15 16 17 18 19 20 22 23 24 25 26
0 0 0 0 0 0 0.162541 0.85569 0.693147 0 -0.158
0 0 0 0 0 0 0.162541 0.85569 0.693147 0 -0.158
0 0 0 0 0 0 0.325083 0.69315 0.368064 0.469 0.287
0 0 0 0 0 0 0.346574 1.03972 0.693147 0 -0.158
0 0 0 0 0 0 0.509115 1.20226 0.693147 0 -0.158
0 0 0 0 0 0 0.509115 1.20226 0.693147 0 -0.158
0 0 0 0 0 0 0 0.69315 0.693147 0 -0.158
0 0 0 0 0 0 0.162541 0.85569 0.693147 0 -0.158
0 0 0 0 0 0 0.162541 0.85569 0.693147 0 -0.158
0 0 0 0 0 0 0.346574 1.03972 0.693147 0 -0.158
0 0 0 1 1
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0 0 0 1 1
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http://bpmsg.com

This work is licensed under the Creative Commons Attribution-Noncommercial

(You need to give credit to the author)
To view a copy of this license, visit
http://creativecommons.org/licenses/by-nc/3.0/sg/
or send a letter to Creative Commons,
171 Second Street, Suite 300, San Francisco, California, 94105, USA.

Author: Klaus D. Goepel

website: http://bpmsg.com

Revisions
Date Comment
12/23/2012 1st draft version
1/3/2013 1st draft version tested
1/9/2013 1st draft version minor optimizations
2/7/2013 AHP consensus indicator added
2/12/2013 Sorting pair-wise added (Clustering)
2/13/2013 Ready for 1st release
2/14/2013 Diagonal elements of pair matrix set depending on parameter
displayed. Modification of sort-4 sequence
7/5/2020 Change of D gamma max = no of categories in sheet Beta and
sheet Calc (see https://bpmsg.com/ahp-consensus-indicator/)

752379362.xlsx
http://bpmsg.com

752379362.xlsx