Reshapes FORCIS data by pivoting species columns into two columns: taxa
(taxon names) and counts (taxon abundances). It converts wider data.frame
to a long format.
Examples
# Attach the package ----
library("forcis")
# Import example dataset ----
file_name <- system.file(file.path("extdata", "FORCIS_net_sample.csv"),
package = "forcis")
net_data <- read.table(file_name, dec = ".", sep = ";")
# Add 'data_type' column ----
net_data$"data_type" <- "Net"
# Dimensions of the data.frame ----
dim(net_data)
#> [1] 2451 77
# Reshape data ----
net_data <- convert_to_long_format(net_data)
# Dimensions of the data.frame ----
dim(net_data)
#> [1] 137256 23
# Column names ----
colnames(net_data)
#> [1] "data_type"
#> [2] "cruise_id"
#> [3] "profile_id"
#> [4] "sample_id"
#> [5] "sample_min_depth"
#> [6] "sample_max_depth"
#> [7] "profile_depth_min"
#> [8] "profile_depth_max"
#> [9] "profile_date_time"
#> [10] "cast_net_op_m2"
#> [11] "subsample_id"
#> [12] "sample_segment_length"
#> [13] "subsample_count_type"
#> [14] "subsample_size_fraction_min"
#> [15] "subsample_size_fraction_max"
#> [16] "site_lat_start_decimal"
#> [17] "site_lon_start_decimal"
#> [18] "sample_volume_filtered"
#> [19] "subsample_all_shells_present_were_counted"
#> [20] "total_of_forams_counted_ind"
#> [21] "sampling_device_type"
#> [22] "taxa"
#> [23] "counts"