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Author's title

Author

*Unverified author*

R Software Module

rwasp_agglomerativehierarchicalclustering.wasp

Title produced by software

Agglomerative Nesting (Hierarchical Clustering)

Date of computation

Wed, 16 Jun 2021 17:45:07 +0200

Cite this page as follows

Statistical Computations at FreeStatistics.org, Office for Research Development and Education, URL https://freestatistics.org/blog/index.php?v=date/2021/Jun/16/t1623858360bp6s8yaaseuspf3.htm/, Retrieved Thu, 25 Apr 2024 17:18:16 +0000

Statistical Computations at FreeStatistics.org, Office for Research Development and Education, URL https://freestatistics.org/blog/index.php?pk=319457, Retrieved Thu, 25 Apr 2024 17:18:16 +0000

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No (this computation is public)

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Family? (F = Feedback message, R = changed R code, M = changed R Module, P = changed Parameters, D = changed Data)

-       [Agglomerative Nesting (Hierarchical Clustering)] [] [2021-06-16 15:45:07] [d41d8cd98f00b204e9800998ecf8427e] [Current]

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148Stations	1		2		3		4		5		6		7		8		9		10		11		12		13		14		15		16		17		18		19		20		21		22		23		24		25	
Water depth (m) 	1.5		1.0		0.8		0.5		1.5		1.0		0.5		0.9		0.5		0.5		0.5		2.0		1.5		1.0		0.8		0.5		1.5		1.0		0.5		0.9		0.5		0.5		0.5		2.0		2.0	
FORAMINIERA SPECIES	A	R	A	R	A	R	A	R	A	R	A	R	A	R	A	R	A	R	A	R	A	R	A	R	A	R	A	R	A	R	A	R	A	R	A	R	A	R	A	R	A	R	A	R	A	R	A	R	A	R
Ammonia beccarii	0	0	0	0	0	0	0	0	1	20	0	0	2	11	0	0	0	0	0	0	0	0	0	0	0	0	2.0	3	3	13	0	0	2	4	2	5	2	9.5	0	0	0	0	0	0	0	0	0	0	0	0
Ammonia dentata	0	0	0	0	0	0	0	0	0	0	0	0	1	6	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	22	24	0	0	0	0
Ammonia parkinsioniana	5	17	120	48	8	15	70	64	0	0	0	0	7	39	0	0	0	0	65	96	21	81	2	5	10	36	15	23	11	46	0	0	27	56	11	30	13	61.9	14	18	0	0	0	0	0	0	176	60	10	20
Ammonia tepida	0	0	100	40	0	0	38	35	4	80	2	6	6	33	0	0	0	0	0	0	4	15	5	14	5	18	13	20	7	29	6	13	17	35	2	5	3	14.3	30	38	0	0	0	0	0	0	100	34	15	31
Asterorotalia pulchella	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	0	0	0	0	0	0	0	0	0	0	0	42	45	0	0	1	2
Cibicides lobatula	1	3	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Elphidium crispum	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	0	0	0	0	0	0	0	0	0	0	0	4	4	0	0	0	0
Elphidium excavatum 	1	3	0	0	0	0	0	0	0	0	0	0	1	6	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	2	0	0	2	9.5	1	1	0	0	0	0	0	0	0	0	0	0
Elphidium hispidulum	0	0	0	0	1	2	0	0	0	0	1	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	2	0	0	0	0	0	0	1	1	0	0	0	0	0	0	1	0.3	0	0
Elphidium poeyanum	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	0	0	0	0	0	0	0	0	0	0	0	7	8	0	0	0	0
Elphidium macellum	0	0	0	0	1	2	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	0	0	0	0	0	0	0	0	0	0	0
Hauverina circinata	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	3	0	0	0	0	1	3	0	0	0	0	0	0	0	0
Miliolinella cirucularis	0	0	0	0	1	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	5	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	2
Miliolinella subrotunda	0	0	0	0	1	2	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	2	5	0	0	2	3	0	0	0	0	1	1	0	0	0	0
Lobatula lobatula	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	0	0	0	0	0	0	0	0	0	0	0	4	4	0	0	0	0
Nonion scaphum	0	0	0	0	0	0	2	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Nonion grateloupi	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	3	1	4	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
Pyrgo depressa	0	0	0	0	0	0	0	0	0	0	0	0	0	0	4	44	10	20	0	0	0	0	4	11	0	0	0	0	0	0	0	0	0	0	5	14	0	0	0	0	3	9	0	0	0	0	0	0	0	0
Pararotalia nipponica	1	3	0	0	3	6	0	0	0	0	1	3	0	0	0	0	1.0	2	0	0	0	0	1	3	1	4	12	19	0	0	1	2	0	0	3	8	0	0	2	3	1	3	0	0	0	0	0	0	0	0
Peneroplis pertusus	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1.0	2	0	0	0	0	4	11	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
Quinqueloculina amygdaloides	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	0	0	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0
Quinqueloculina berthelotiana	0	0	0	0	3	6	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	2	3	0	0	0	0	1	1	0	0	0	0
Quinqueloculina boueana	0	0	0	0	2	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	5	0	0	0	0	0	0	0	0	0	0	2	3	0	0	0	0	0	0	0	0	0	0
Quinqueloculina lata	0	0	22	9	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2.0	5	0	0	10	16	0	0	0	0	1	2	0	0	1	4.8	0	0	0	0	0	0	0	0	15	5	16	33
Quinqueloculina laevigata	0	0	0	0	2	4	0	0	0	0	2	6	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	4	0	0	1	3	0	0	10	13	0	0	0	0	2	2	0	0	1	2
Quinqueloculina lamarckiana	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	2	3	0	0	0	0	0	0	0	0	0	0	2	3	0	0	0	0	0	0	0	0	0	0
Quinqueloculina oblonga	1	3	0	0	0	0	0	0	0	0	1	3	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	0	0	0	0	0
Quinqueloculina spp.	0	0	0	0	0	0	0	0	0	0	0	0	1	6	1	11	1	2	1	1	0	0	0	0	0	0	2	3	0	0	1	2	0	0	0	0	0	0	2	3	0	0	0	0	8	9	0	0	0	0
Quinqueloculina stelligera	0	0	0	0	3	6	0	0	0	0	0	0	0	0	4	44	30	61	0	0	0	0	14	38	4	14	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	2
Quinqueloculina stalkeri	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	0	2	5	0	0	2	3	0	0	0	0	1	1	0	0	0	0
Quinqueloculina seminulum	0	0	0	0	0	0	0	0	0	0	4	13	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	4	0	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	2	4
Quinqueloculina tropicalis	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	1	2	0	0	0	0	0	0	0	0	0	0	3	4	0	0	0	0	0	0	0	0	0	0
Quinqueloculina vensusta	1	3	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Rosalina globularis	0	0	0	0	0	0	0	0	0	0	1	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	3	0	0	0	0	0	0	0	0	0	0	2	3	0	0	0	0	0	0	0	0	1	2
Spiroloculina communis	2	7	0	0	11	20	0	0	0	0	10	32	0	0	0	0	0	0	0	0	0	0	3	8	4	14	0	0	0	0	1	2	0	0	2	5	0	0	1	1	1	3	0	0	0	0	0	0	0	0
Spiroloculina depressula	12	40	0	0	5	9	0	0	0	0	4	13	0	0	0	0	4	8	0	0	0	0	0	0	4	14	1	2	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0
Spiroloculina orbis	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Triloculina rupertiana	6	20	0	0	13	24	0	0	0	0	5	16	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	6	16	0	0	0	0	26	81	0	0	0	0	0	0	0	0
Triloculina terquemiana	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	1	2	2	8	32	70	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	2
Trochammina rotaliformis	0	0	10	4	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	0	0	0	0	0	0	0	0	0	2	0.7	0	0
Total Foraminifera Number (TFN)	30	100	252	100	54	100	110	100	5	100	31	100	18	100	9	100	49	100	68	100	26	100	37	100	28	100	64	100	24	100	46	100	48	100	37	100	21	100	78	100	32	100	0	0	93	100	294	100	49	100
Species richness	9		4	0	13	0	3	0	2	0	10	0	6	0	3	0	7	0	3	0	3	0	9	0	6	0	12	0	4	0	7	0	5	0	11	0	5	0	17	0	5	0	0	0	11	0	5	0	10	0

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119
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115
126
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149
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133
114
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145
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178
163
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199
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184
162
146
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Summary of computational transaction
Raw Input	view raw input (R code)
Raw Output	view raw output of R engine
Computing time	0 seconds
R Server	Big Analytics Cloud Computing Center
R Framework error message	Warning: there are blank lines in the 'Data X' field. Please, use NA for missing data - blank lines are simply deleted and are NOT treated as missing values.

\begin{tabular}{lllllllll}
\hline
Summary of computational transaction \tabularnewline
Raw Input view raw input (R code)  \tabularnewline
Raw Outputview raw output of R engine  \tabularnewline
Computing time0 seconds \tabularnewline
R ServerBig Analytics Cloud Computing Center \tabularnewline
R Framework error message & Warning: there are blank lines in the 'Data X' field.
Please, use NA for missing data - blank lines are simply
 deleted and are NOT treated as missing values. \tabularnewline
\hline
\end{tabular}
%Source: https://freestatistics.org/blog/index.php?pk=319457&T=0

[TABLE]
[ROW]

Summary of computational transaction[/C][/ROW] [ROW]

Raw Input[/C]

view raw input (R code) [/C][/ROW] [ROW]

Raw Output[/C]

view raw output of R engine [/C][/ROW] [ROW]

Computing time[/C]

0 seconds[/C][/ROW] [ROW]

R Server[/C]

Big Analytics Cloud Computing Center[/C][/ROW] [ROW]

R Framework error message[/C][C]

Warning: there are blank lines in the 'Data X' field.
Please, use NA for missing data - blank lines are simply
 deleted and are NOT treated as missing values.

[/C][/ROW] [/TABLE] Source: https://freestatistics.org/blog/index.php?pk=319457&T=0

Globally Unique Identifier (entire table): ba.freestatistics.org/blog/index.php?pk=319457&T=0

As an alternative you can also use a QR Code:

The GUIDs for individual cells are displayed in the table below:

Summary of computational transaction
Raw Input	view raw input (R code)
Raw Output	view raw output of R engine
Computing time	0 seconds
R Server	Big Analytics Cloud Computing Center
R Framework error message	Warning: there are blank lines in the 'Data X' field. Please, use NA for missing data - blank lines are simply deleted and are NOT treated as missing values.

Parameters (Session):

par1 = euclidean ; par2 = average ; par3 = 1 ; par4 = 0.5 ; par5 = 0.5 ; par6 = 0.5 ; par7 = 0 ;

Parameters (R input):

par1 = euclidean ; par2 = average ; par3 = 1 ; par4 = 0.5 ; par5 = 0.5 ; par6 = 0.5 ; par7 = 0 ;

R code (references can be found in the software module):

par3 <- as.numeric(par3)
par4 <- as.numeric(par4)
par5 <- as.numeric(par5)
par6 <- as.numeric(par6)
par7 <- as.numeric(par7)
library(cluster)
if (par2 == 'flexible')
{
if (par3 == 1) pm <- c(par4)
if (par3 == 3) pm <- c(par4,par5,par6)
if (par3 == 4) pm <- c(par4,par5,par6,par7)
ag <- agnes(t(y),metric=par1,method=par2,par.method=pm)
} else {
ag <- agnes(t(y),metric=par1,method=par2)
}
mysub <- paste('Method: ',par2)
summary(ag)
bitmap(file='test1.png')
plot(ag,which.plots=2,main=main,sub=mysub,xlab=xlab,ylab=ylab)
dev.off()
bitmap(file='test2.png')
plot(ag,which.plots=1,main='Banner',sub=mysub,xlab=ylab,ylab=xlab)
dev.off()
load(file='createtable')
a<-table.start()
a<-table.row.start(a)
a<-table.element(a,'Agglomerative Nesting (Hierarchical Clustering)',2,TRUE)
a<-table.row.end(a)
a<-table.row.start(a)
a<-table.element(a,'Agglomerative Coefficient',header=TRUE)
a<-table.element(a,ag$ac)
a<-table.row.end(a)
a<-table.end(a)
table.save(a,file='mytable.tab')

Free Statistics

Description of Statistical Computation

Tree of Dependent Computations

Dataset

Tables (Output of Computation)

Figures (Output of Computation)

Input Parameters & R Code