Fulldata
Fulldata.Rmd
read.csv(file = "../data-raw/IUCN Red List Changes - 2002 to 2022 - Single Measure.csv") -> Single_Measure
read.csv(file = "../data-raw/IUCN Red List Changes - 2002 to 2022 - Multiple Measures.csv") -> Multiple_Measure
head(Single_Measure)## Year Class Metric Number.of.Species
## 1 2002 Amphibians Critically Endangered 30
## 2 2003 Amphibians Critically Endangered 30
## 3 2004 Amphibians Critically Endangered 413
## 4 2006 Amphibians Critically Endangered 442
## 5 2007 Amphibians Critically Endangered 441
## 6 2008 Amphibians Critically Endangered 475
head(Multiple_Measure)## Year Mammal.Species.Assessed Bird.Species.Assessed Reptile.Species.Assessed
## 1 2022 5,969 11,162 10,150
## 2 2021 5,968 11,162 10,148
## 3 2020 5,940 11,158 8,492
## 4 2019 5,850 11,147 7,829
## 5 2018 5,692 11,126 7,127
## 6 2017 5,674 11,122 6,278
## Amphibian.Species.Assessed Fish.Species.Assessed Insect.Species.Assessed
## 1 7,316 24,356 12,161
## 2 7,296 22,581 12,100
## 3 7,212 22,005 10,865
## 4 6,794 19,199 8,696
## 5 6,722 16,803 8,037
## 6 6,609 16,409 7,639
## Mollusc.Species.Assessed Other.Invertebrate.Species.Assessed
## 1 9,017 5,403
## 2 9,019 5,395
## 3 8,847 5,267
## 4 8,749 5,243
## 5 8,627 5,222
## 6 8,413 5,078
## Plant.Species.Assessed Fungus...Protist.Species.Assessed
## 1 61,371 612
## 2 58,343 565
## 3 50,369 423
## 4 38,630 295
## 5 27,514 81
## 6 24,230 71
## Mammal.Species.Critically.Endangered Bird.Species.Critically.Endangered
## 1 232 231
## 2 229 225
## 3 221 223
## 4 203 225
## 5 201 224
## 6 202 222
## Reptile.Species.Critically.Endangered Amphibian.Species.Critically.Endangered
## 1 433 681
## 2 433 673
## 3 324 650
## 4 309 588
## 5 287 550
## 6 266 552
## Fish.Species.Critically.Endangered Insect.Species.Critically.Endangered
## 1 800 412
## 2 739 408
## 3 666 347
## 4 592 311
## 5 486 300
## 6 468 273
## Mollusc.Species.Critically.Endangered
## 1 717
## 2 717
## 3 682
## 4 667
## 5 633
## 6 625
## Other.Invertebrate.Species.Critically.Endangered
## 1 291
## 2 290
## 3 282
## 4 270
## 5 252
## 6 243
## Plant.Species.Critically.Endangered
## 1 5232
## 2 4976
## 3 4337
## 4 3229
## 5 2879
## 6 2722
## Fungus...Protist.Species.Critically.Endangered Mammal.Species..Endangered
## 1 36 549
## 2 32 547
## 3 30 539
## 4 19 505
## 5 14 482
## 6 10 476
## Bird.Species..Endangered Reptile.Species..Endangered
## 1 423 787
## 2 447 783
## 3 460 584
## 4 461 565
## 5 469 515
## 6 461 484
## Amphibian.Species..Endangered Fish.Species..Endangered
## 1 1103 1215
## 2 1085 1139
## 3 1036 1036
## 4 964 868
## 5 903 674
## 6 869 676
## Insect.Species..Endangered Mollusc.Species..Endangered
## 1 949 599
## 2 937 599
## 3 690 586
## 4 571 564
## 5 537 546
## 6 461 547
## Other.Invertebrate.Species..Endangered Plant.Species..Endangered
## 1 371 9996
## 2 370 9400
## 3 347 7925
## 4 344 5727
## 5 348 4537
## 6 340 4123
## Fungus...Protist.Species..Endangered Mammal.Species.Vulnerable
## 1 102 556
## 2 96 557
## 3 82 557
## 4 60 536
## 5 21 536
## 6 18 526
## Bird.Species.Vulnerable Reptile.Species.Vulnerable
## 1 755 625
## 2 773 623
## 3 798 541
## 4 800 535
## 5 799 505
## 6 786 465
## Amphibian.Species.Vulnerable Fish.Species.Vulnerable
## 1 731 1533
## 2 730 1454
## 3 704 1338
## 4 648 1214
## 5 639 1172
## 6 679 1242
## Insect.Species.Vulnerable Mollusc.Species.Vulnerable
## 1 930 1068
## 2 925 1069
## 3 811 1032
## 4 765 1019
## 5 700 1016
## 6 680 1015
## Other.Invertebrate.Species.Vulnerable Plant.Species.Vulnerable
## 1 729 9221
## 2 727 8959
## 3 712 8098
## 4 710 6818
## 5 708 5883
## 6 709 5660
## Fungus...Protist.Species.Vulnerable
## 1 152
## 2 142
## 3 127
## 4 91
## 5 24
## 6 21
Single_Measure %>%
filter(Class == "Amphibians" | Class == "
Birds" | Class == "Fishes" | Class == "Fungi & Protists") %>%
group_by(Class, Metric) %>%
head()## # A tibble: 6 × 4
## # Groups: Class, Metric [1]
## Year Class Metric Number.of.Species
## <int> <chr> <chr> <chr>
## 1 2002 Amphibians Critically Endangered 30
## 2 2003 Amphibians Critically Endangered 30
## 3 2004 Amphibians Critically Endangered 413
## 4 2006 Amphibians Critically Endangered 442
## 5 2007 Amphibians Critically Endangered 441
## 6 2008 Amphibians Critically Endangered 475Taking a look at species that are in danger of becoming endangered
#as.integer(Single_Measure$Number.of.Species)
Single_Measure %>%
group_by(Metric) %>%
mutate(Species = as.integer(Number.of.Species)) %>%
filter(!is.na(Species)) %>%
ggplot(mapping = aes(x = Year, y = Species, color = Metric)) +
geom_point(size = 0.5) +
facet_wrap(~Class, scales = "free_y")## Warning: There was 1 warning in `mutate()`.
## ℹ In argument: `Species = as.integer(Number.of.Species)`.
## ℹ In group 3: `Metric = "Total Assessed"`.
## Caused by warning:
## ! NAs introduced by coercion
str(Single_Measure)## 'data.frame': 1000 obs. of 4 variables:
## $ Year : int 2002 2003 2004 2006 2007 2008 2009 2010 2011 2012 ...
## $ Class : chr "Amphibians" "Amphibians" "Amphibians" "Amphibians" ...
## $ Metric : chr "Critically Endangered" "Critically Endangered" "Critically Endangered" "Critically Endangered" ...
## $ Number.of.Species: chr "30" "30" "413" "442" ...Trends that show the rate of extinct for each species. Amphibians, Birds, fishes, insects, Mammals, Molluscs, Invertebrate, Plants, reptiles have graphs that show that these species are threatened to go instinct. While Fungi and protist is the largest group that has been assessed
Single_Measure %>%
filter(Class == "amphibians" | Class == "Mammals" | Class == "Fungi & Protists" | Class == "Mollus" | Class == "Reptiles" | Class == "Plants" | Class == "Other Invertebrates") %>%
group_by(Metric) %>%
mutate(Species = as.integer(Number.of.Species)) %>%
filter(!is.na(Species)) %>%
ggplot(mapping = aes(x = Year, y = Species, color = Metric)) +
geom_point(size = 1) +
facet_wrap(~Class, scales = "free_y")## Warning: There was 1 warning in `mutate()`.
## ℹ In argument: `Species = as.integer(Number.of.Species)`.
## ℹ In group 3: `Metric = "Total Assessed"`.
## Caused by warning:
## ! NAs introduced by coercion
Classes of species that are classes based on how threatned they are to becoming endangered.
## [1] "Year"
inner_join(Single_Measure, Multiple_Measure, by = "Year") %>%
filter(Year == "2018")## Year Class Metric Number.of.Species
## 1 2018 Amphibians Critically Endangered 550
## 2 2018 Amphibians Endangered 903
## 3 2018 Amphibians Total Assessed 6,722
## 4 2018 Amphibians Total Threatened 2092
## 5 2018 Amphibians Vulnerable 639
## 6 2018 Birds Critically Endangered 224
## 7 2018 Birds Endangered 469
## 8 2018 Birds Total Assessed 11,126
## 9 2018 Birds Total Threatened 1492
## 10 2018 Birds Vulnerable 799
## 11 2018 Fishes Critically Endangered 486
## 12 2018 Fishes Endangered 674
## 13 2018 Fishes Total Assessed 16,803
## 14 2018 Fishes Total Threatened 2332
## 15 2018 Fishes Vulnerable 1172
## 16 2018 Fungi & Protists Critically Endangered 14
## 17 2018 Fungi & Protists Endangered 21
## 18 2018 Fungi & Protists Total Assessed 81
## 19 2018 Fungi & Protists Total Threatened 59
## 20 2018 Fungi & Protists Vulnerable 24
## 21 2018 Insects Critically Endangered 300
## 22 2018 Insects Endangered 537
## 23 2018 Insects Total Assessed 8,037
## 24 2018 Insects Total Threatened 1537
## 25 2018 Insects Vulnerable 700
## 26 2018 Mammals Critically Endangered 201
## 27 2018 Mammals Endangered 482
## 28 2018 Mammals Total Assessed 5,692
## 29 2018 Mammals Total Threatened 1219
## 30 2018 Mammals Vulnerable 536
## 31 2018 Molluscs Critically Endangered 633
## 32 2018 Molluscs Endangered 546
## 33 2018 Molluscs Total Assessed 8,627
## 34 2018 Molluscs Total Threatened 2195
## 35 2018 Molluscs Vulnerable 1016
## 36 2018 Other Invertebrates Critically Endangered 252
## 37 2018 Other Invertebrates Endangered 348
## 38 2018 Other Invertebrates Total Assessed 5,222
## 39 2018 Other Invertebrates Total Threatened 1308
## 40 2018 Other Invertebrates Vulnerable 708
## 41 2018 Plants Critically Endangered 2879
## 42 2018 Plants Endangered 4537
## 43 2018 Plants Total Assessed 27,514
## 44 2018 Plants Total Threatened 13299
## 45 2018 Plants Vulnerable 5883
## 46 2018 Reptiles Critically Endangered 287
## 47 2018 Reptiles Endangered 515
## 48 2018 Reptiles Total Assessed 7,127
## 49 2018 Reptiles Total Threatened 1307
## 50 2018 Reptiles Vulnerable 505
## Mammal.Species.Assessed Bird.Species.Assessed Reptile.Species.Assessed
## 1 5,692 11,126 7,127
## 2 5,692 11,126 7,127
## 3 5,692 11,126 7,127
## 4 5,692 11,126 7,127
## 5 5,692 11,126 7,127
## 6 5,692 11,126 7,127
## 7 5,692 11,126 7,127
## 8 5,692 11,126 7,127
## 9 5,692 11,126 7,127
## 10 5,692 11,126 7,127
## 11 5,692 11,126 7,127
## 12 5,692 11,126 7,127
## 13 5,692 11,126 7,127
## 14 5,692 11,126 7,127
## 15 5,692 11,126 7,127
## 16 5,692 11,126 7,127
## 17 5,692 11,126 7,127
## 18 5,692 11,126 7,127
## 19 5,692 11,126 7,127
## 20 5,692 11,126 7,127
## 21 5,692 11,126 7,127
## 22 5,692 11,126 7,127
## 23 5,692 11,126 7,127
## 24 5,692 11,126 7,127
## 25 5,692 11,126 7,127
## 26 5,692 11,126 7,127
## 27 5,692 11,126 7,127
## 28 5,692 11,126 7,127
## 29 5,692 11,126 7,127
## 30 5,692 11,126 7,127
## 31 5,692 11,126 7,127
## 32 5,692 11,126 7,127
## 33 5,692 11,126 7,127
## 34 5,692 11,126 7,127
## 35 5,692 11,126 7,127
## 36 5,692 11,126 7,127
## 37 5,692 11,126 7,127
## 38 5,692 11,126 7,127
## 39 5,692 11,126 7,127
## 40 5,692 11,126 7,127
## 41 5,692 11,126 7,127
## 42 5,692 11,126 7,127
## 43 5,692 11,126 7,127
## 44 5,692 11,126 7,127
## 45 5,692 11,126 7,127
## 46 5,692 11,126 7,127
## 47 5,692 11,126 7,127
## 48 5,692 11,126 7,127
## 49 5,692 11,126 7,127
## 50 5,692 11,126 7,127
## Amphibian.Species.Assessed Fish.Species.Assessed Insect.Species.Assessed
## 1 6,722 16,803 8,037
## 2 6,722 16,803 8,037
## 3 6,722 16,803 8,037
## 4 6,722 16,803 8,037
## 5 6,722 16,803 8,037
## 6 6,722 16,803 8,037
## 7 6,722 16,803 8,037
## 8 6,722 16,803 8,037
## 9 6,722 16,803 8,037
## 10 6,722 16,803 8,037
## 11 6,722 16,803 8,037
## 12 6,722 16,803 8,037
## 13 6,722 16,803 8,037
## 14 6,722 16,803 8,037
## 15 6,722 16,803 8,037
## 16 6,722 16,803 8,037
## 17 6,722 16,803 8,037
## 18 6,722 16,803 8,037
## 19 6,722 16,803 8,037
## 20 6,722 16,803 8,037
## 21 6,722 16,803 8,037
## 22 6,722 16,803 8,037
## 23 6,722 16,803 8,037
## 24 6,722 16,803 8,037
## 25 6,722 16,803 8,037
## 26 6,722 16,803 8,037
## 27 6,722 16,803 8,037
## 28 6,722 16,803 8,037
## 29 6,722 16,803 8,037
## 30 6,722 16,803 8,037
## 31 6,722 16,803 8,037
## 32 6,722 16,803 8,037
## 33 6,722 16,803 8,037
## 34 6,722 16,803 8,037
## 35 6,722 16,803 8,037
## 36 6,722 16,803 8,037
## 37 6,722 16,803 8,037
## 38 6,722 16,803 8,037
## 39 6,722 16,803 8,037
## 40 6,722 16,803 8,037
## 41 6,722 16,803 8,037
## 42 6,722 16,803 8,037
## 43 6,722 16,803 8,037
## 44 6,722 16,803 8,037
## 45 6,722 16,803 8,037
## 46 6,722 16,803 8,037
## 47 6,722 16,803 8,037
## 48 6,722 16,803 8,037
## 49 6,722 16,803 8,037
## 50 6,722 16,803 8,037
## Mollusc.Species.Assessed Other.Invertebrate.Species.Assessed
## 1 8,627 5,222
## 2 8,627 5,222
## 3 8,627 5,222
## 4 8,627 5,222
## 5 8,627 5,222
## 6 8,627 5,222
## 7 8,627 5,222
## 8 8,627 5,222
## 9 8,627 5,222
## 10 8,627 5,222
## 11 8,627 5,222
## 12 8,627 5,222
## 13 8,627 5,222
## 14 8,627 5,222
## 15 8,627 5,222
## 16 8,627 5,222
## 17 8,627 5,222
## 18 8,627 5,222
## 19 8,627 5,222
## 20 8,627 5,222
## 21 8,627 5,222
## 22 8,627 5,222
## 23 8,627 5,222
## 24 8,627 5,222
## 25 8,627 5,222
## 26 8,627 5,222
## 27 8,627 5,222
## 28 8,627 5,222
## 29 8,627 5,222
## 30 8,627 5,222
## 31 8,627 5,222
## 32 8,627 5,222
## 33 8,627 5,222
## 34 8,627 5,222
## 35 8,627 5,222
## 36 8,627 5,222
## 37 8,627 5,222
## 38 8,627 5,222
## 39 8,627 5,222
## 40 8,627 5,222
## 41 8,627 5,222
## 42 8,627 5,222
## 43 8,627 5,222
## 44 8,627 5,222
## 45 8,627 5,222
## 46 8,627 5,222
## 47 8,627 5,222
## 48 8,627 5,222
## 49 8,627 5,222
## 50 8,627 5,222
## Plant.Species.Assessed Fungus...Protist.Species.Assessed
## 1 27,514 81
## 2 27,514 81
## 3 27,514 81
## 4 27,514 81
## 5 27,514 81
## 6 27,514 81
## 7 27,514 81
## 8 27,514 81
## 9 27,514 81
## 10 27,514 81
## 11 27,514 81
## 12 27,514 81
## 13 27,514 81
## 14 27,514 81
## 15 27,514 81
## 16 27,514 81
## 17 27,514 81
## 18 27,514 81
## 19 27,514 81
## 20 27,514 81
## 21 27,514 81
## 22 27,514 81
## 23 27,514 81
## 24 27,514 81
## 25 27,514 81
## 26 27,514 81
## 27 27,514 81
## 28 27,514 81
## 29 27,514 81
## 30 27,514 81
## 31 27,514 81
## 32 27,514 81
## 33 27,514 81
## 34 27,514 81
## 35 27,514 81
## 36 27,514 81
## 37 27,514 81
## 38 27,514 81
## 39 27,514 81
## 40 27,514 81
## 41 27,514 81
## 42 27,514 81
## 43 27,514 81
## 44 27,514 81
## 45 27,514 81
## 46 27,514 81
## 47 27,514 81
## 48 27,514 81
## 49 27,514 81
## 50 27,514 81
## Mammal.Species.Critically.Endangered Bird.Species.Critically.Endangered
## 1 201 224
## 2 201 224
## 3 201 224
## 4 201 224
## 5 201 224
## 6 201 224
## 7 201 224
## 8 201 224
## 9 201 224
## 10 201 224
## 11 201 224
## 12 201 224
## 13 201 224
## 14 201 224
## 15 201 224
## 16 201 224
## 17 201 224
## 18 201 224
## 19 201 224
## 20 201 224
## 21 201 224
## 22 201 224
## 23 201 224
## 24 201 224
## 25 201 224
## 26 201 224
## 27 201 224
## 28 201 224
## 29 201 224
## 30 201 224
## 31 201 224
## 32 201 224
## 33 201 224
## 34 201 224
## 35 201 224
## 36 201 224
## 37 201 224
## 38 201 224
## 39 201 224
## 40 201 224
## 41 201 224
## 42 201 224
## 43 201 224
## 44 201 224
## 45 201 224
## 46 201 224
## 47 201 224
## 48 201 224
## 49 201 224
## 50 201 224
## Reptile.Species.Critically.Endangered
## 1 287
## 2 287
## 3 287
## 4 287
## 5 287
## 6 287
## 7 287
## 8 287
## 9 287
## 10 287
## 11 287
## 12 287
## 13 287
## 14 287
## 15 287
## 16 287
## 17 287
## 18 287
## 19 287
## 20 287
## 21 287
## 22 287
## 23 287
## 24 287
## 25 287
## 26 287
## 27 287
## 28 287
## 29 287
## 30 287
## 31 287
## 32 287
## 33 287
## 34 287
## 35 287
## 36 287
## 37 287
## 38 287
## 39 287
## 40 287
## 41 287
## 42 287
## 43 287
## 44 287
## 45 287
## 46 287
## 47 287
## 48 287
## 49 287
## 50 287
## Amphibian.Species.Critically.Endangered Fish.Species.Critically.Endangered
## 1 550 486
## 2 550 486
## 3 550 486
## 4 550 486
## 5 550 486
## 6 550 486
## 7 550 486
## 8 550 486
## 9 550 486
## 10 550 486
## 11 550 486
## 12 550 486
## 13 550 486
## 14 550 486
## 15 550 486
## 16 550 486
## 17 550 486
## 18 550 486
## 19 550 486
## 20 550 486
## 21 550 486
## 22 550 486
## 23 550 486
## 24 550 486
## 25 550 486
## 26 550 486
## 27 550 486
## 28 550 486
## 29 550 486
## 30 550 486
## 31 550 486
## 32 550 486
## 33 550 486
## 34 550 486
## 35 550 486
## 36 550 486
## 37 550 486
## 38 550 486
## 39 550 486
## 40 550 486
## 41 550 486
## 42 550 486
## 43 550 486
## 44 550 486
## 45 550 486
## 46 550 486
## 47 550 486
## 48 550 486
## 49 550 486
## 50 550 486
## Insect.Species.Critically.Endangered Mollusc.Species.Critically.Endangered
## 1 300 633
## 2 300 633
## 3 300 633
## 4 300 633
## 5 300 633
## 6 300 633
## 7 300 633
## 8 300 633
## 9 300 633
## 10 300 633
## 11 300 633
## 12 300 633
## 13 300 633
## 14 300 633
## 15 300 633
## 16 300 633
## 17 300 633
## 18 300 633
## 19 300 633
## 20 300 633
## 21 300 633
## 22 300 633
## 23 300 633
## 24 300 633
## 25 300 633
## 26 300 633
## 27 300 633
## 28 300 633
## 29 300 633
## 30 300 633
## 31 300 633
## 32 300 633
## 33 300 633
## 34 300 633
## 35 300 633
## 36 300 633
## 37 300 633
## 38 300 633
## 39 300 633
## 40 300 633
## 41 300 633
## 42 300 633
## 43 300 633
## 44 300 633
## 45 300 633
## 46 300 633
## 47 300 633
## 48 300 633
## 49 300 633
## 50 300 633
## Other.Invertebrate.Species.Critically.Endangered
## 1 252
## 2 252
## 3 252
## 4 252
## 5 252
## 6 252
## 7 252
## 8 252
## 9 252
## 10 252
## 11 252
## 12 252
## 13 252
## 14 252
## 15 252
## 16 252
## 17 252
## 18 252
## 19 252
## 20 252
## 21 252
## 22 252
## 23 252
## 24 252
## 25 252
## 26 252
## 27 252
## 28 252
## 29 252
## 30 252
## 31 252
## 32 252
## 33 252
## 34 252
## 35 252
## 36 252
## 37 252
## 38 252
## 39 252
## 40 252
## 41 252
## 42 252
## 43 252
## 44 252
## 45 252
## 46 252
## 47 252
## 48 252
## 49 252
## 50 252
## Plant.Species.Critically.Endangered
## 1 2879
## 2 2879
## 3 2879
## 4 2879
## 5 2879
## 6 2879
## 7 2879
## 8 2879
## 9 2879
## 10 2879
## 11 2879
## 12 2879
## 13 2879
## 14 2879
## 15 2879
## 16 2879
## 17 2879
## 18 2879
## 19 2879
## 20 2879
## 21 2879
## 22 2879
## 23 2879
## 24 2879
## 25 2879
## 26 2879
## 27 2879
## 28 2879
## 29 2879
## 30 2879
## 31 2879
## 32 2879
## 33 2879
## 34 2879
## 35 2879
## 36 2879
## 37 2879
## 38 2879
## 39 2879
## 40 2879
## 41 2879
## 42 2879
## 43 2879
## 44 2879
## 45 2879
## 46 2879
## 47 2879
## 48 2879
## 49 2879
## 50 2879
## Fungus...Protist.Species.Critically.Endangered Mammal.Species..Endangered
## 1 14 482
## 2 14 482
## 3 14 482
## 4 14 482
## 5 14 482
## 6 14 482
## 7 14 482
## 8 14 482
## 9 14 482
## 10 14 482
## 11 14 482
## 12 14 482
## 13 14 482
## 14 14 482
## 15 14 482
## 16 14 482
## 17 14 482
## 18 14 482
## 19 14 482
## 20 14 482
## 21 14 482
## 22 14 482
## 23 14 482
## 24 14 482
## 25 14 482
## 26 14 482
## 27 14 482
## 28 14 482
## 29 14 482
## 30 14 482
## 31 14 482
## 32 14 482
## 33 14 482
## 34 14 482
## 35 14 482
## 36 14 482
## 37 14 482
## 38 14 482
## 39 14 482
## 40 14 482
## 41 14 482
## 42 14 482
## 43 14 482
## 44 14 482
## 45 14 482
## 46 14 482
## 47 14 482
## 48 14 482
## 49 14 482
## 50 14 482
## Bird.Species..Endangered Reptile.Species..Endangered
## 1 469 515
## 2 469 515
## 3 469 515
## 4 469 515
## 5 469 515
## 6 469 515
## 7 469 515
## 8 469 515
## 9 469 515
## 10 469 515
## 11 469 515
## 12 469 515
## 13 469 515
## 14 469 515
## 15 469 515
## 16 469 515
## 17 469 515
## 18 469 515
## 19 469 515
## 20 469 515
## 21 469 515
## 22 469 515
## 23 469 515
## 24 469 515
## 25 469 515
## 26 469 515
## 27 469 515
## 28 469 515
## 29 469 515
## 30 469 515
## 31 469 515
## 32 469 515
## 33 469 515
## 34 469 515
## 35 469 515
## 36 469 515
## 37 469 515
## 38 469 515
## 39 469 515
## 40 469 515
## 41 469 515
## 42 469 515
## 43 469 515
## 44 469 515
## 45 469 515
## 46 469 515
## 47 469 515
## 48 469 515
## 49 469 515
## 50 469 515
## Amphibian.Species..Endangered Fish.Species..Endangered
## 1 903 674
## 2 903 674
## 3 903 674
## 4 903 674
## 5 903 674
## 6 903 674
## 7 903 674
## 8 903 674
## 9 903 674
## 10 903 674
## 11 903 674
## 12 903 674
## 13 903 674
## 14 903 674
## 15 903 674
## 16 903 674
## 17 903 674
## 18 903 674
## 19 903 674
## 20 903 674
## 21 903 674
## 22 903 674
## 23 903 674
## 24 903 674
## 25 903 674
## 26 903 674
## 27 903 674
## 28 903 674
## 29 903 674
## 30 903 674
## 31 903 674
## 32 903 674
## 33 903 674
## 34 903 674
## 35 903 674
## 36 903 674
## 37 903 674
## 38 903 674
## 39 903 674
## 40 903 674
## 41 903 674
## 42 903 674
## 43 903 674
## 44 903 674
## 45 903 674
## 46 903 674
## 47 903 674
## 48 903 674
## 49 903 674
## 50 903 674
## Insect.Species..Endangered Mollusc.Species..Endangered
## 1 537 546
## 2 537 546
## 3 537 546
## 4 537 546
## 5 537 546
## 6 537 546
## 7 537 546
## 8 537 546
## 9 537 546
## 10 537 546
## 11 537 546
## 12 537 546
## 13 537 546
## 14 537 546
## 15 537 546
## 16 537 546
## 17 537 546
## 18 537 546
## 19 537 546
## 20 537 546
## 21 537 546
## 22 537 546
## 23 537 546
## 24 537 546
## 25 537 546
## 26 537 546
## 27 537 546
## 28 537 546
## 29 537 546
## 30 537 546
## 31 537 546
## 32 537 546
## 33 537 546
## 34 537 546
## 35 537 546
## 36 537 546
## 37 537 546
## 38 537 546
## 39 537 546
## 40 537 546
## 41 537 546
## 42 537 546
## 43 537 546
## 44 537 546
## 45 537 546
## 46 537 546
## 47 537 546
## 48 537 546
## 49 537 546
## 50 537 546
## Other.Invertebrate.Species..Endangered Plant.Species..Endangered
## 1 348 4537
## 2 348 4537
## 3 348 4537
## 4 348 4537
## 5 348 4537
## 6 348 4537
## 7 348 4537
## 8 348 4537
## 9 348 4537
## 10 348 4537
## 11 348 4537
## 12 348 4537
## 13 348 4537
## 14 348 4537
## 15 348 4537
## 16 348 4537
## 17 348 4537
## 18 348 4537
## 19 348 4537
## 20 348 4537
## 21 348 4537
## 22 348 4537
## 23 348 4537
## 24 348 4537
## 25 348 4537
## 26 348 4537
## 27 348 4537
## 28 348 4537
## 29 348 4537
## 30 348 4537
## 31 348 4537
## 32 348 4537
## 33 348 4537
## 34 348 4537
## 35 348 4537
## 36 348 4537
## 37 348 4537
## 38 348 4537
## 39 348 4537
## 40 348 4537
## 41 348 4537
## 42 348 4537
## 43 348 4537
## 44 348 4537
## 45 348 4537
## 46 348 4537
## 47 348 4537
## 48 348 4537
## 49 348 4537
## 50 348 4537
## Fungus...Protist.Species..Endangered Mammal.Species.Vulnerable
## 1 21 536
## 2 21 536
## 3 21 536
## 4 21 536
## 5 21 536
## 6 21 536
## 7 21 536
## 8 21 536
## 9 21 536
## 10 21 536
## 11 21 536
## 12 21 536
## 13 21 536
## 14 21 536
## 15 21 536
## 16 21 536
## 17 21 536
## 18 21 536
## 19 21 536
## 20 21 536
## 21 21 536
## 22 21 536
## 23 21 536
## 24 21 536
## 25 21 536
## 26 21 536
## 27 21 536
## 28 21 536
## 29 21 536
## 30 21 536
## 31 21 536
## 32 21 536
## 33 21 536
## 34 21 536
## 35 21 536
## 36 21 536
## 37 21 536
## 38 21 536
## 39 21 536
## 40 21 536
## 41 21 536
## 42 21 536
## 43 21 536
## 44 21 536
## 45 21 536
## 46 21 536
## 47 21 536
## 48 21 536
## 49 21 536
## 50 21 536
## Bird.Species.Vulnerable Reptile.Species.Vulnerable
## 1 799 505
## 2 799 505
## 3 799 505
## 4 799 505
## 5 799 505
## 6 799 505
## 7 799 505
## 8 799 505
## 9 799 505
## 10 799 505
## 11 799 505
## 12 799 505
## 13 799 505
## 14 799 505
## 15 799 505
## 16 799 505
## 17 799 505
## 18 799 505
## 19 799 505
## 20 799 505
## 21 799 505
## 22 799 505
## 23 799 505
## 24 799 505
## 25 799 505
## 26 799 505
## 27 799 505
## 28 799 505
## 29 799 505
## 30 799 505
## 31 799 505
## 32 799 505
## 33 799 505
## 34 799 505
## 35 799 505
## 36 799 505
## 37 799 505
## 38 799 505
## 39 799 505
## 40 799 505
## 41 799 505
## 42 799 505
## 43 799 505
## 44 799 505
## 45 799 505
## 46 799 505
## 47 799 505
## 48 799 505
## 49 799 505
## 50 799 505
## Amphibian.Species.Vulnerable Fish.Species.Vulnerable
## 1 639 1172
## 2 639 1172
## 3 639 1172
## 4 639 1172
## 5 639 1172
## 6 639 1172
## 7 639 1172
## 8 639 1172
## 9 639 1172
## 10 639 1172
## 11 639 1172
## 12 639 1172
## 13 639 1172
## 14 639 1172
## 15 639 1172
## 16 639 1172
## 17 639 1172
## 18 639 1172
## 19 639 1172
## 20 639 1172
## 21 639 1172
## 22 639 1172
## 23 639 1172
## 24 639 1172
## 25 639 1172
## 26 639 1172
## 27 639 1172
## 28 639 1172
## 29 639 1172
## 30 639 1172
## 31 639 1172
## 32 639 1172
## 33 639 1172
## 34 639 1172
## 35 639 1172
## 36 639 1172
## 37 639 1172
## 38 639 1172
## 39 639 1172
## 40 639 1172
## 41 639 1172
## 42 639 1172
## 43 639 1172
## 44 639 1172
## 45 639 1172
## 46 639 1172
## 47 639 1172
## 48 639 1172
## 49 639 1172
## 50 639 1172
## Insect.Species.Vulnerable Mollusc.Species.Vulnerable
## 1 700 1016
## 2 700 1016
## 3 700 1016
## 4 700 1016
## 5 700 1016
## 6 700 1016
## 7 700 1016
## 8 700 1016
## 9 700 1016
## 10 700 1016
## 11 700 1016
## 12 700 1016
## 13 700 1016
## 14 700 1016
## 15 700 1016
## 16 700 1016
## 17 700 1016
## 18 700 1016
## 19 700 1016
## 20 700 1016
## 21 700 1016
## 22 700 1016
## 23 700 1016
## 24 700 1016
## 25 700 1016
## 26 700 1016
## 27 700 1016
## 28 700 1016
## 29 700 1016
## 30 700 1016
## 31 700 1016
## 32 700 1016
## 33 700 1016
## 34 700 1016
## 35 700 1016
## 36 700 1016
## 37 700 1016
## 38 700 1016
## 39 700 1016
## 40 700 1016
## 41 700 1016
## 42 700 1016
## 43 700 1016
## 44 700 1016
## 45 700 1016
## 46 700 1016
## 47 700 1016
## 48 700 1016
## 49 700 1016
## 50 700 1016
## Other.Invertebrate.Species.Vulnerable Plant.Species.Vulnerable
## 1 708 5883
## 2 708 5883
## 3 708 5883
## 4 708 5883
## 5 708 5883
## 6 708 5883
## 7 708 5883
## 8 708 5883
## 9 708 5883
## 10 708 5883
## 11 708 5883
## 12 708 5883
## 13 708 5883
## 14 708 5883
## 15 708 5883
## 16 708 5883
## 17 708 5883
## 18 708 5883
## 19 708 5883
## 20 708 5883
## 21 708 5883
## 22 708 5883
## 23 708 5883
## 24 708 5883
## 25 708 5883
## 26 708 5883
## 27 708 5883
## 28 708 5883
## 29 708 5883
## 30 708 5883
## 31 708 5883
## 32 708 5883
## 33 708 5883
## 34 708 5883
## 35 708 5883
## 36 708 5883
## 37 708 5883
## 38 708 5883
## 39 708 5883
## 40 708 5883
## 41 708 5883
## 42 708 5883
## 43 708 5883
## 44 708 5883
## 45 708 5883
## 46 708 5883
## 47 708 5883
## 48 708 5883
## 49 708 5883
## 50 708 5883
## Fungus...Protist.Species.Vulnerable
## 1 24
## 2 24
## 3 24
## 4 24
## 5 24
## 6 24
## 7 24
## 8 24
## 9 24
## 10 24
## 11 24
## 12 24
## 13 24
## 14 24
## 15 24
## 16 24
## 17 24
## 18 24
## 19 24
## 20 24
## 21 24
## 22 24
## 23 24
## 24 24
## 25 24
## 26 24
## 27 24
## 28 24
## 29 24
## 30 24
## 31 24
## 32 24
## 33 24
## 34 24
## 35 24
## 36 24
## 37 24
## 38 24
## 39 24
## 40 24
## 41 24
## 42 24
## 43 24
## 44 24
## 45 24
## 46 24
## 47 24
## 48 24
## 49 24
## 50 24Two datasets that are joined to see the total amount of species threatend to becoming endangered in the year of 2018
inner_join(Single_Measure, Multiple_Measure, by = "Year") %>%
select(Year, Class, Metric, Number.of.Species) %>%
group_by(Metric) %>%
mutate(Species = as.integer(Number.of.Species)) %>%
filter(!is.na(Species)) %>%
ggplot() +
geom_line(mapping = aes(x = Year, y = Species, color = Metric)) +
facet_wrap(~Class, scales = "free_y")## Warning: There was 1 warning in `mutate()`.
## ℹ In argument: `Species = as.integer(Number.of.Species)`.
## ℹ In group 3: `Metric = "Total Assessed"`.
## Caused by warning:
## ! NAs introduced by coercion
Graphs that show the two dataset joined to assess how endangered each species are from the early 2000’s to present day. Similar to the previous data as most species are threatned to becoming endangered
Multiple_Measure %>%
rowwise() %>%
mutate(endangered = Mammal.Species.Critically.Endangered * Other.Invertebrate.Species.Critically.Endangered) %>%
summarize(mean_endangered = mean(endangered))## # A tibble: 20 × 1
## mean_endangered
## <dbl>
## 1 67512
## 2 66410
## 3 62322
## 4 54810
## 5 50652
## 6 49086
## 7 43044
## 8 43681
## 9 43665
## 10 30184
## 11 25872
## 12 25608
## 13 24816
## 14 18612
## 15 18612
## 16 14018
## 17 13608
## 18 9882
## 19 11224
## 20 10679The average number of mammals that are on the verge of becoming endangered. Important to understand as mammals are vitale for humans such as for food, perceiving life on earth etc.
SM_tree <- tnrs_match_names(names = "Mammal")
tol_subtree(ott_id = SM_tree$ott_id) -> Mammal_tree
SM_tree## search_string unique_name approximate_match ott_id is_synonym flags
## 1 mammal Polinices TRUE 57536 FALSE
## number_matches
## 1 1
str( Mammal_tree)## List of 4
## $ edge : int [1:63, 1:2] 64 64 64 64 64 64 64 64 64 64 ...
## $ tip.label : chr [1:63] "Polinices_sagamiensis_ott339996" "Polinices_uber_ott375602" "Polinices_peselephanti_ott375604" "Polinices_jukesii_ott375606" ...
## $ Nnode : int 1
## $ node.label: chr "Polinices ott57536"
## - attr(*, "class")= chr "phylo"
class( Mammal_tree)## [1] "phylo"
class(SM_tree)## [1] "match_names" "data.frame"
Ntip( Mammal_tree)## [1] 63
plot.phylo(x = Mammal_tree, cex = 0.5)
MM_tree <- tnrs_match_names(names = "Mollusc")
tol_subtree(ott_id = MM_tree$ott_id)##
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## Warning in collapse_singles(tr, show_progress): Dropping singleton nodes with
## labels: Cyclophorus perdix ott5263410, Cyclosurus ott4960866, Aulopoma
## ott4960836, Elgonocyclus ott4960861, Micraulax ott4960842, Tropidogyra
## ott2929163, Opisthostoma brachyacrum ott5321522, Opisthostoma wallacei
## ott5321542, Diplommatina superba ott230617, Eclogarinia ott7944368, Benigoma
## ott7943995, Clostophis ott4960785, Entypogyra ott2921765, Euthema ott7944370,
## Niahia ott4960771, Pseudonicida ott2920653, Pugnellia ott2923692, Cochlostoma
## adamii ott4960750, Cochlostoma nanum ott4960744, Cochlostoma achaicum
## ott4960727, Cochlostoma roseoli ott179550, Cochlostoma septemspirale ott500894,
## Rhabdotakra ott2925543, Toffolettia ott4961035, Imerezia ott5693100,
## Apolloniana ott2920370, Naggsiaconcha ott4960850, Proelektrea ott2915564,
## Cochlostoma henricae ott4960712, Alpinipupina ott7945022, Cordillerapina
## ott7945035, Cretatortulosa ott7945037, Cyclomastoma ott2919611, Kanapa
## ott4159422, Protocallia ott2925199, Sulapina ott2914462, Daronia ott2916865,
## Cyclopedus ott7944913, Cyclovendreysia ott4961011, Mexcyclotus ott4961018,
## Rugicyclotus ott2925604, Xenocyclus ott4960924, Neomaizania ott4159465,
## Thomeomaizania ott4159464, Viviparoidea ott7494476, Cipangopaludina chinensis
## ott64315, Bellamya unicolor ott684902, Bellamya heudi ott846670, Margarya
## melanioides ott96205, Filopaludina sumatrensis ott212983, Filopaludina martensi
## ott6353794, Sinotaia quadrata ott884084, Heterogen ott4159417, Eyriesia
## ott4159415, Trochopaludina ott2920648, Apameaus ott7945290, Boganmargarya
## ott7945379, Celetaia ott7945381, Fretacaeles ott7945387, Glaucostracia
## ott2927416, Igapaludina ott2922102, Kaya ott2918916, Macromargarya ott7945457,
## Pedinopomus ott2917850, Rubeyella ott2925012, Scalipaludina ott2917843,
## Wealdenia ott2919142, Ampullarioidea ott560991, Forbesopomus ott4159402, Penion
## cuvierianus ott2900470, Neobuccinum ott265007, Cominella nassoides ott2900573,
## Cominella mirabilis ott2900614, Cominella quoyana ott2900596, Godfreyena
## ott4157041, Buccinulum pertinax ott2900704, Buccinulum linea ott843181,
## Sulcosinus ott2901776, Parficulina ott2901242, Appisana ott2901268,
## Chlanificula ott2901274, Volutopsion ott2901276, Chauvetea ott2901278,
## Corneobuccinum ott2901284, Micrologus ott2901288, Ornatoconcha ott2901299,
## Parancistrolepis ott2901210, Turrivolutopsius ott2901328, Euthriostoma
## ott2901571, Steye ott2901616, Ptychosalpinx ott2901522, Pseudoneptunea
## ott2901375, Fascinus ott2901891, Strebela ott5704753, Chickcharnea ott4156966,
## Spikebuccinum ott4156995, Fusinella ott2926037, Helicofusus ott4157006,
## Germonea ott4157009, Bathyancistrolepis ott4157033, Eclectofusus ott5704754,
## Falsimacme ott7495785, Anomacme ott4157121, Muffinbuccinum ott4157124,
## Buccininae ott7495742, Buccinulini ott2911728, Crenatosipho ott4157126,
## Drepanodontus ott4157128, Paracalliloncha ott4958686, Anna (genus in
## Lophotrochozoa) ott4958689, Aidemofusus ott5704755, Chlanidotella ott7495769,
## Minioniella ott7495811, Akiracolus ott7950745, Dorsaninae ott5704760, Bulliinae
## ott5704758, Neoteron ott2901197, Buccinanopsinae ott7496017, Busycotypus
## ott33661, Busycoarctum ott2920079, Trophonofusus ott2898347, Harasewychia
## ott2898333, Ollaphon ott2898599, Angulofusus ott5321421, Tarantinaea
## ott5722733, Fractolatirus ott2898408, Nodopelagia ott2898613, Lightbournus
## ott4157234, Dentifusus ott4157268, Aurantilaria ott5722740, Opeatostoma
## ott2898521, Fusilaria ott5722739, Parvofusus ott7951801, Pseudolathyrus
## ott7951835, Taphon ott2899433, Minibraria ott2910697, Axifex ott7951081,
## Pictocolumbella ott2899770, Salitra ott2899792, Nodochila ott2899884, Zetekia
## ott2899906, Cilara ott2899835, Rhombinella ott2899972, Zella ott2900151,
## Pseudanachis ott2899819, Gatliffena ott2900270, Glyptanachis ott4156915,
## Bifurcium ott4156939, Ramoliva ott7495922, Alcira ott4156899, Euspiralta
## ott5704768, Columbellina ott2900271, Ithiaesopus ott2921219, Lavesopus
## ott4156946, Trahaldia ott7951362, Belomitridae ott5693112, Cancellarioidea
## ott178259, Cancellicula ott5723226, Fusiaphera ott382377, Cancellaphera
## ott4156877, Cancellariinae ott5704851, Oamaruia ott2902565, Gergovia
## ott2902525, Nevia ott4156880, Terenolla ott581846, Arielia ott2911052, Conus
## damottai ott700915, Conus navarroi ott1092956, Conus grahami ott1092955, Conus
## anabathrum ott2903405, Conus buxeus ott2903299, Conus princeps ott835879, Conus
## cedonulli ott2903687, Conus generalis ott261276, Conus ochroleucus ott457444,
## Conus regius ott835874, Conus cancellatus ott700914, Conus textile ott126307,
## Conus magus ott126318, Conus arenatus ott170806, Conus praecellens ott42557,
## Conus daucus ott707666, Conus vexillum ott16228, Conus miliaris ott351605,
## Estellarca ott45581, Conasprella comatosa ott451667, Californiconus ott2904043,
## Kenyonia ott4157552, Kioconus ott7496306, Plagioconus ott7952677, Turridrupa
## bijubata ott65036, Dotomella ott2910744, Typhosyrinx ott2911074, Epidirella
## ott2911461, Rhodopeoma ott2911713, Paraclathrella ott2912280, Decollidrillia
## ott2911813, Gurales ott2914246, Domenginella ott4157373, Gemmulopsis
## ott7953908, Ingaunoturricula ott4157397, Hauturua ott2912708, Comarmondia
## ott2912819, Strombinoturris ott2911482, Turricula nelliae ott151996,
## Caliendrula ott2910651, Trachydrillia ott2910157, Benthoclionella ott2913644,
## Belaturricula turrita ott2912505, Austroturris ott2913615, Darbya ott4958990,
## Austrocarina ott2910568, Naskia ott4158114, Aguilaria ott2910982, Abyssocomitas
## ott2910639, Kurodadrillia ott2910805, Anticomitas ott2909997, Conorbela
## ott2911597, Conticosta ott2911974, Hormospira ott2912723, Antimelatoma
## ott2913480, Cretaspira ott2911286, Dallspira ott4157599, Monilispira
## ott4157610, Toxicochlespira ott142637, Vitricythara ott2904124, Oenopotella
## ott2910201, Vitjazinella ott2910203, Bellacythara ott2911976, Apitua
## ott2912388, Cacodaphnella ott2910197, Paraspirotropis ott2911869, Suturocythara
## ott4158085, Euryentmema ott2910414, Thatcheria ott454998, Truncadaphne
## ott2902709, Tuskaroria ott2902737, Microgenia ott2902701, Glyphostomoides
## ott2902731, Abyssobela ott2902772, Zenepos ott2904260, Abyssothauma ott4157302,
## Vepridaphne ott4157309, Awheaturris ott2917675, Pseudolusitanops ott7953415,
## Ancistrosyrinx ott2910454, Artemidiconus ott2910053, Bouchetispiridae
## ott4959721, Bouchetispira ott4959722, Emozamia ott2910147, Rhizochilus
## ott2910944, Liniaxis ott2911261, Mexacanthina lugubris ott741356, Chorus
## ott1033820, Ocenotrophon ott2911160, Roperia (genus in Opisthokonta)
## ott2910468, Crassilabrum ott2910478, Pterorytis ott2910797, Muregina
## ott2910481, Calcitrapessa ott2913553, Inermicosta ott4157678, Trochia
## ott4157680, Chicocenebra ott4157814, Tribulus (genus in Opisthokonta)
## ott278926, Stramonita haemastoma ott663884, Drupa ricinus ott974323,
## Concholepas ott685790, Phrygiomurex ott2911211, Bedevina ott4157723, Xastilia
## ott4157829, Distichotyphis ott2910682, Brasityphis ott4157797, Minortrophon
## ott2911687, Anatrophon ott2911879, Xenotrophon ott2913738, Xymenella
## ott2914065, Lenitrophon ott7496698, Cinclidotyphis ott2913007, Nass ott2910288,
## Heteropurpura ott2923094, Claremontiella ott7954654, Carinomitra ott7496525,
## Magnamitra ott7496538, Neotiara ott7496585, Roseomitra ott7496598, Cymbiini
## ott5704814, Minicymbiola ott2908397, Argentovoluta ott2908450, Zidonini
## ott5723150, Harpovoluta ott2908590, Zidona ott2908435, Athletinae ott5704815,
## Ampulla ott2908332, Volutini ott5723152, Neptuneopsis ott2908579, Plicolivinae
## ott5704825, Lyriopsis ott6359814, Liopeplum ott2908318, Babylonia formosae
## ott275718, Marigordiella ott2912672, Caribeginella ott5722930, Gibbacousteau
## ott5722931, Marginellona ott2910110, Afrivoluta ott2911969, Moruminae
## ott5704794, Plesiocystiscinae ott5704797, Extra ott2912869, Ticocystiscus
## ott4158024, Pleioptygmatidae ott2911014, Suluspira ott5321452, Enigmavasum
## ott2902023, Cryptofusus ott2902000, Syrinx (genus in phylum Mollusca)
## ott4958803, Fustifusus ott4157144, Tropidofusus ott7496926, Clavogyra
## ott7955859, Tudiclinae ott5704765, Daffymitra ott4157843, Egestas ott2902057,
## Recourtoliva ott7496842, Olivancillariinae ott7955551, Agaroniinae ott7496793,
## Calyptolivinae ott7496794, Eoancilla ott4157915, Triumphis ott2911835,
## Testallium ott4158003, Zoila friendii ott585, Cribrarula cumingii ott15258, F##
## Phylogenetic tree with 92564 tips and 7259 internal nodes.
##
## Tip labels:
## Cyclophorus_turgidus_angulatus_ott56, Cyclophorus_turgidus_radians_ott521861, Cyclophorus_turgidus_miyakoensis_ott1073428, Cyclophorus_formosaensis_ott60, Cyclophorus_friesianus_ott63, Cyclophorus_martensianus_ott65, ...
## Node labels:
## Mollusca ott802117, , , , Gastropoda ott409995, , ...
##
## Unrooted; no branch lengths.
MM_tree## search_string unique_name approximate_match ott_id is_synonym flags
## 1 mollusc Mollusca TRUE 802117 FALSE
## number_matches
## 1 1
Single_Measure %>%
mutate(Species = as.integer(Number.of.Species)) %>%
group_by(Year, Class) %>%
filter(!is.na(Species)) %>%
filter(Class == "Birds") %>%
summarize(bird_mean = mean(Species))## Warning: There was 1 warning in `mutate()`.
## ℹ In argument: `Species = as.integer(Number.of.Species)`.
## Caused by warning:
## ! NAs introduced by coercion## `summarise()` has grouped output by 'Year'. You can override using the
## `.groups` argument.## # A tibble: 20 × 3
## # Groups: Year [20]
## Year Class bird_mean
## <int> <chr> <dbl>
## 1 2002 Birds 596
## 2 2003 Birds 597
## 3 2004 Birds 606
## 4 2006 Birds 603
## 5 2007 Birds 608.
## 6 2008 Birds 611
## 7 2009 Birds 612.
## 8 2010 Birds 620
## 9 2011 Birds 626.
## 10 2012 Birds 656.
## 11 2013 Birds 654
## 12 2014 Birds 686.
## 13 2015 Birds 688.
## 14 2016 Birds 730
## 15 2017 Birds 734.
## 16 2018 Birds 746
## 17 2019 Birds 743
## 18 2020 Birds 740.
## 19 2021 Birds 722.
## 20 2022 Birds 704.Taking look at birds which are closely related to reptiles and seeing how the average of birds have changed throughout the years
c("Mammal", "Fungi", "insects", "Amphibians", "Protist", "Molluscs", "Plants") -> SM_tree_Class
tnrs_match_names(names = SM_tree_Class) ->SM_tree_order_tnrs
SM_tree_order_tnrs## search_string unique_name approximate_match ott_id is_synonym flags
## 1 mammal Polinices TRUE 57536 FALSE
## 2 fungi Fungi FALSE 352914 FALSE
## 3 insects Insecta TRUE 1062253 FALSE
## 4 amphibians Amphibia TRUE 544595 FALSE
## 5 protist Protis TRUE 903762 FALSE sibling_higher
## 6 molluscs Mollusca TRUE 802117 FALSE
## 7 plants Epilampra TRUE 889599 FALSE
## number_matches
## 1 1
## 2 1
## 3 1
## 4 6
## 5 1
## 6 1
## 7 3
tol_induced_subtree(ott_ids = SM_tree_order_tnrs$ott_id) -> SM_order_tree##
Progress [----------------------------------] 0/72 ( 0) ?s
Progress [================================] 72/72 (100) 0s
## Warning in collapse_singles(tr, show_progress): Dropping singleton nodes with
## labels: Holozoa ott5246131, mrcaott42ott34294, Metazoa ott691846,
## mrcaott42ott3989, mrcaott42ott570365, mrcaott42ott150, Bilateria ott117569,
## Deuterostomia ott147604, Chordata ott125642, mrcaott42ott658, Craniata
## (subphylum in Deuterostomia) ott947318, Vertebrata (subphylum in Deuterostomia)
## ott801601, Gnathostomata (superclass in phylum Chordata) ott278114, Teleostomi
## ott114656, Euteleostomi ott114654, Sarcopterygii ott458402,
## Dipnotetrapodomorpha ott4940726, Tetrapoda ott229562, mrcaott49ott6612,
## Lophotrochozoa ott155737, mrcaott56ott5497, Mollusca ott802117,
## mrcaott56ott1881, mrcaott56ott1589, mrcaott56ott111501, Gastropoda ott409995,
## mrcaott56ott1590, Caenogastropoda ott272321, Littorinimorpha ott285849,
## Naticoidea ott937445, Naticidae ott361914, Polinicinae ott5704640, Annelida
## ott941620, mrcaott519ott42113, mrcaott519ott17816, mrcaott519ott6914,
## mrcaott519ott2534, mrcaott519ott60509, mrcaott519ott2010, mrcaott2010ott11669,
## mrcaott2010ott4314, mrcaott2010ott82781, mrcaott2010ott5127, Serpulidae
## ott440707, Ecdysozoa ott611099, Panarthropoda ott816442, Arthropoda ott632179,
## Mandibulata ott985907, Pancrustacea ott985906, mrcaott100ott705,
## mrcaott100ott131202, Hexapoda ott568991, mrcaott100ott98461, Insecta
## ott1062253, Dicondylia ott983656, Pterygota (subclass in Opisthokonta)
## ott1048707, mrcaott100ott3046, Neoptera ott815350, Polyneoptera ott815351,
## mrcaott791ott3873, mrcaott3873ott5055, mrcaott3873ott4325, Dictyoptera (genus
## in cohort Polyneoptera) ott48286, Blattodea ott920179, mrcaott27633ott38911,
## mrcaott27633ott144940, Blaberoidea ott492334, mrcaott27633ott93339,
## mrcaott27633ott31752, Blaberidae ott48290, Epilamprinae ott472792, Nucletmycea
## ott5246132
SM_order_tree##
## Phylogenetic tree with 5 tips and 4 internal nodes.
##
## Tip labels:
## Amphibia_ott544595, Polinices_ott57536, Protis_ott903762, Epilampra_ott889599, Fungi_ott352914
## Node labels:
## Opisthokonta ott332573, mrcaott42ott49, Protostomia ott189832, mrcaott56ott519
##
## Rooted; no branch lengths.
plot.phylo(x = SM_order_tree)