Analysis of community ecology data in R

David Zelený

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 en:data_preparation_r [2017/02/28 18:52]David Zelený created en:data_preparation_r [2019/02/22 18:00] (current)David Zelený [R functions] 2019/02/22 18:00 David Zelený [R functions] 2017/10/11 20:36 external edit2017/03/01 19:57 David Zelený 2017/02/28 18:52 David Zelený created Next revision Previous revision 2019/02/22 18:00 David Zelený [R functions] 2017/10/11 20:36 external edit2017/03/01 19:57 David Zelený 2017/02/28 18:52 David Zelený created Line 4: Line 4: [[{|width: 7em; background-color:​ white; color: navy}data_preparation_examples|Examples]] [[{|width: 7em; background-color:​ white; color: navy}data_preparation_examples|Examples]] [[{|width: 7em; background-color:​ white; color: navy}data_preparation_exercise|Exercise {{::​lock-icon.png?​nolink|}}]] [[{|width: 7em; background-color:​ white; color: navy}data_preparation_exercise|Exercise {{::​lock-icon.png?​nolink|}}]] + + ===== R functions ===== + Simple EDA (Exploratory Data Analysis): + * ''​boxplot''​ - draws the boxplot of data; with argument ''​outline = TRUE''​ (default setting) draws also the outliers; + * ''​hist''​ - histogram with distribution of values in the variable; + * ''​qqnorm'',​ ''​qqline''​ - draws QQ plot (comparing the quantiles of values in variable x to quantiles of normal distribution) and adds the line for comparison. + * ''​pairs''​ - draws the pairwise relationships between variables in the matrix/​data.frame;​ the original ''​pairs''​ function can be extended for panel functions from //Numerical Ecology with R//, which gives quite interesting tool for data overview (see details [[en:​customized_functions:​pairs2|here]]). + + Data transformation + * ''​sqrt''​ + * ''​log'',​ ''​log10'',​ ''​log1p''​ + + Data standardization + * ''​scale''​ + * ''​decostand''​ (library ''​vegan''​)