all_ott_orders: Open Tree of Life Orders

In LunaSare/phunding: Mapping funded taxa across the Tree of Life

Description

Data Frame of all order in Open Tree of Life Taxonomy

Usage

all_ott_orders

Format

data frame

Details

Generated with grep -i "order" taxonomy.tsv > orders.tsv grep -i "order" taxonomy.tsv | grep -v "genus" | grep -v "no rank - terminal" | grep -v "merged" | grep -v "barren" | grep -v "extinct" | grep -v "major_rank_conflict_inherited" | grep -v "no rank" | grep -v "family" | grep -v "suborder" | grep -v "species" | grep -v "infraorder" | grep -v "unplaced" | grep -v "superorder" | grep -v "tribe" | grep -v "parvorder" > orders.tsv all_ott_orders <- read.table("/Users/luna/GoogleDrive/datelife/otol/taxonomy/ott/orders.tsv", sep = "|", header = FALSE, fill = TRUE, stringsAsFactors=FALSE) names(all_ott_orders) <- c("ott_id", "parent_ott_id", "name", "rank", "source_info", "unique_name", "flags", "?") for (i in c("name", "rank", "source_info", "unique_name", "flags")) all_ott_orders[,i] <- gsub("\t", "", all_ott_orders[,i]) all_ott_orders[,"source_info"] <- gsub("/", "", all_ott_orders[,"source_info"]) unique(all_ott_orders[,"flags"]) usethis::use_data(all_ott_orders, overwrite = TRUE)

LunaSare/phunding documentation built on May 25, 2019, 1:36 p.m.