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en:data:removal_experiment [2015/04/03 06:20]
David Zelený [Script for importing data into R]
en:data:removal_experiment [2018/04/09 15:53] (current)
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 Example data, coming with the book of Šmilauer & Lepš (2014), originally published in Špačková et al. (1998) Example data, coming with the book of Šmilauer & Lepš (2014), originally published in Špačková et al. (1998)
 ===== Description of dataset ===== ===== Description of dataset =====
-Experimental data studying the effect of dominant species, plant litter and moss on species composition of wet meadow plant community, with special focus on seedling recruitment. The experiment was established in four randomised complete blocks, the treatment had four levels, and the community composition was measured once.+[{{ :​obrazky:​removal-experiment-design.png?​400|Design of the removal experiment with randomised complete blocks (from Šmilauer & Lepš 2014)}}]Experimental data studying the effect of dominant species, plant litter and moss on species composition of wet meadow plant community, with special focus on seedling recruitment. The experiment was established in four randomised complete blocks, the treatment had four levels, and the community composition was measured once.
 The experiment was established in March 1994, shortly after snowmelt. Each of the four randomized blocks contained four plots, each with a different treatment: (1) control plot, where the vegetation remained undisturbed,​ (2) a plot with the removal of litter, (3) a plot with the removal of dominant species //Nardus stricta//, and (4) a plot with the removal of litter and mosses (to remove only mosses without litter was not technically possible). The experiment was established in March 1994, shortly after snowmelt. Each of the four randomized blocks contained four plots, each with a different treatment: (1) control plot, where the vegetation remained undisturbed,​ (2) a plot with the removal of litter, (3) a plot with the removal of dominant species //Nardus stricta//, and (4) a plot with the removal of litter and mosses (to remove only mosses without litter was not technically possible).
 +[{{ obrazky:​seedlings-kotorova.png?​300|Example of seedlings from the study (drawings by Iva Kotorová, from Špačková et al. 1998)}}]
 +
 ===== Locality ===== ===== Locality =====
-Experiment was conducted in experimental wet meadow [[http://​botanika.prf.jcu.cz/​suspa/​ohrazeni_nove/?​act=2|Ohrazení]],​ located around 10 km SE of Ceske Budejovice, Czech Republic. The vegetation can be classified into alliances //​Molinion//​ and //Violion caninae//.+Experiment was conducted in experimental wet meadow [[http://​botanika.prf.jcu.cz/​suspa/​ohrazeni_nove/english/?​act=2|Ohrazení]],​ located around 10 km SE of Ceske Budejovice, Czech Republic. The vegetation can be classified into alliances //​Molinion//​ and //Violion caninae//.
 ===== Environmental variables ===== ===== Environmental variables =====
 ^Name of variable^Description^ ^Name of variable^Description^
-|MOWING|Mowing (each year in June or July)| +|treatment|Name of the treatment: Cont controlLitter = litter removedNardus ​dominant species removed, Li+Mo litter + mosses removed
-|FERTIL|Fertilized (65g NPK/m2)| +|block|Block number
-|REMOV|Dominant removal (//Molinia caerulea//) using screw-driver (conducted ​the first year and repeated every year if necessary)| +|seedlsum|Total number of seedlings per plot|
-|YEAR|Year of observation (0 1994i.e. before the experiment started1-3 1995-1997)+
-|Yr0-Yr3|Year of observation (dummy variable)+
-|P1-P24|Plot code (can be used as covariable)|+
 ===== Download data ===== ===== Download data =====
-  *{{:data:seedl.xlsx|Seedl.xlsx}} - MS Excel format file, containing species data, environmental variables, description of experimental design and other information (this file comes with the book of Šmilauer & Lepš (2014), Chapter 15, Case study 4)+  *{{https://​raw.githubusercontent.com/​zdealveindy/​anadat-r/​master/​data/ohraz.xls/seedl.xlsx|seedl.xlsx}} - MS Excel format file, containing species data, environmental variables, description of experimental design and other information (this file comes with the book of Šmilauer & Lepš (2014), Chapter 15, Case study 4)
  
-  *{{http://www.davidzeleny.net/​anadat-r/​data-download/​seedl-spe.txt|seedl-spe.txt}} +  *{{https://raw.githubusercontent.com/​zdealveindy/anadat-r/master/​data/​seedl-spe.txt|seedl-spe.txt}} 
-  *{{http://www.davidzeleny.net/​anadat-r/​data-download/​seedl-env.txt|seedl-env.txt}}+  *{{https://raw.githubusercontent.com/​zdealveindy/anadat-r/master/​data/​seedl-env.txt|seedl-env.txt}}
 ===== Script for importing data into R ===== ===== Script for importing data into R =====
 <code rsplus> <code rsplus>
-seedlings.spe <- read.delim ('http://www.davidzeleny.net/​anadat-r/​data-download/​seedl-spe.txt',​ row.names = 1) +seedlings.spe <- read.delim ('https://raw.githubusercontent.com/​zdealveindy/anadat-r/master/​data/​seedl-spe.txt',​ row.names = 1) 
-seedlings.env <- read.delim ('http://www.davidzeleny.net/​anadat-r/​data-download/​seedl-env.txt',​ row.names = 1)+seedlings.env <- read.delim ('https://raw.githubusercontent.com/​zdealveindy/anadat-r/master/​data/​seedl-env.txt',​ row.names = 1)
    
 </​code>​ </​code>​
  
 ===== References ===== ===== References =====
-  * Špačková,​ I., Kotorová, I. & Lepš, J. (1998) Sensitivity of seedling recruitment to moss, litter and dominant removal in an oligotrophic wet meadow. //Folia Geobotanica//,​ 33" ​17-30. ​ [[http://​botanika.bf.jcu.cz/​suspa/​pdf/​SpackFolia98.pdf|pdf]]+  * Špačková,​ I., Kotorová, I. & Lepš, J. (1998) Sensitivity of seedling recruitment to moss, litter and dominant removal in an oligotrophic wet meadow. //Folia Geobotanica//,​ 3317-30. ​ [[http://​botanika.bf.jcu.cz/​suspa/​pdf/​SpackFolia98.pdf|pdf]]
   * Šmilauer, P. & Lepš, J. (2014) //​Multivariate Analysis of Ecological Data using Canoco 5.// Second Edition. Cambridge University Press, Cambridge, UK. ([[http://​regent.prf.jcu.cz/​maed2/​chap15.zip|website with example data]])   * Šmilauer, P. & Lepš, J. (2014) //​Multivariate Analysis of Ecological Data using Canoco 5.// Second Edition. Cambridge University Press, Cambridge, UK. ([[http://​regent.prf.jcu.cz/​maed2/​chap15.zip|website with example data]])
  
en/data/removal_experiment.1428013223.txt.gz · Last modified: 2017/10/11 20:36 (external edit)