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#find the columns corresponding to excitation-emission data indx = grepl("f(\\d{3})\\.(\\d{3})", colnames(ss.eem)) %>% which #set up a data frame with the excitation-emission frequencies matches = gregexpr("\\d{3}", colnames(ss.eem)[indx]) freqs = regmatches(colnames(ss.eem)[indx], matches) %>% as.data.frame %>% t %>%...
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##R Programming: Assignment 2 # -K. Divis (July 2015) # -Created as part of Coursera Data Science Specialization makeVector = function(x = numeric()) { m = NULL set = function(y) { x <<- y #My understanding is this: it searches the parent environment to see if x already has a value and...
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% Generated by roxygen2: do not edit by hand % Please edit documentation in R/rotate_dot_plot_dendrogram.R \encoding{UTF-8} \name{rotate_dot_plot_dendrogram} \alias{rotate_dot_plot_dendrogram} \title{Interactively rotate dendrograms from dot_plot outputs} \usage{ rotate_dot_plot_dendrogram(dot_plot_output, axis_to_rota...
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% Generated by roxygen2: do not edit by hand % Please edit documentation in R/pubsub_objects.R \name{PushConfig.attributes} \alias{PushConfig.attributes} \title{PushConfig.attributes Object} \usage{ PushConfig.attributes() } \value{ PushConfig.attributes object } \description{ PushConfig.attributes Object } \details{ A...
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#census income quintiles master script source("income_quintiles/income_quintiles_1971.R") source("income_quintiles/income_quintiles_1981.R") source("income_quintiles/income_quintiles_1986.R") source("income_quintiles/income_quintiles_1991.R") source("income_quintiles/income_quintiles_1996.R") #This is a check quintile_...
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############### Time series plot #################################################################### # Data Set used: Economics data set # Source of data set: R-Inbuild data set # Problem statement: Plot the unemployment rate over the year. library(ggplot2) data1 = economics chart1 = ggplot(data1, ae...
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#THIS FILE CREATS THE MASTER PLOT #IT INCLUDES REAL AND EFFECTIVE MUTATION RATES, SUMMARY STATS AND RELATIVE TO THE SIZE OF ARRAY AND MUTATION TYPE #IT GETS THE INFO FROM SEVERAL INDEPENDENT RUNS LABELLED BY _s0, _s1, etc #THIS FILE INTENDS TO SHOW THE EVOLUTION OF SEVERAL SUMMARY STATISTICS #This file intends to sho...
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dnormalComp <- function(media1=0, dp1=1, media2=0, dp2=1, nc=.95, rc="=") { ######################## # Script principal ######################## # eixo x da curva normal lim <- c( min(c(media1+c(-4,4)*dp1, media2+c(-4,4)*dp2)), max(c(media1+c(-4,4)*dp1, media2+c(-4,4)*dp...
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setwd("~/R/coursera/devdataprod-016/quizzes") shinyServer(function(input,output){ output$myname=renderText(input$name) output$myn2 =renderText(input$n2) output$mygender=renderText(input$gender) output$myslide1=renderText(paste("value is:",input$slide1)) } )
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distance <- function(x_i, x_j) { d <- 0 for (i in 1:(length(x_i) - 1)) { s <- x_i[i] - x_j[i] d <- d + (s * s) } return(sqrt(d)) } knn <- function(k, x_i, points) { x_i <- as.numeric(x_i) distances <- c() categories <- c() for (j in 1:nrow(points)) { x_j <- as.numeric(points[j,]) dis...
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## ----include=FALSE------------------------------------------------------- library(knitr) # set global chunk options, put figures into folder options(replace.assign=TRUE,show.signif.stars=FALSE) opts_chunk$set(fig.path='figures/figure-', fig.align='center', fig.show='hold') options(replace.assign=TRUE,width=75) opts_c...
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# TODO: Add comment # # Author: jeroen ############################################################################### #This file is called AAA so that it will be run first. #' Serialize an R object to JSON. #' #' This is a slightly modified version of the asJSON function in RJSONIO. This function is mostly for inte...
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% Generated by roxygen2: do not edit by hand % Please edit documentation in R/activity_code.r \name{ovl4} \alias{ovl4} \title{Index of overlap between circular distributions.} \usage{ ovl4(fit1, fit2) } \arguments{ \item{fit1, fit2}{Fitted activity models of class actmod created using function fitact.} } \va...
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# Epiphytic diatoms associated with the south African kelp # Diatom data exploration, analysis and presentation. # Mayombo Ntambwe # 11th Febraury 2018 library(tidyverse) library(vegan) library(cluster) library(ggplot2) library(ggdendro) library(tcltk) library(BiodiversityR) library(readr) # read in the data cou...
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% Generated by roxygen2: do not edit by hand % Please edit documentation in R/webapp2.R \name{Web2} \alias{Web2} \title{web instance generator} \usage{ Web2() } \value{ } \description{ web instance generator } \examples{ None }
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library(tidyverse) #to check working directory getwd() #to set the working directory #se the Tools | Change Working Dir... menu (Session | Set Working Directory on a mac). #This will also change directory location of the Files pane. #https://support.rstudio.com/hc/en-us/articles/200711843-Working-Directories-and-Work...
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% Generated by roxygen2: do not edit by hand % Please edit documentation in R/lsGetSurveyProperties.R \name{lsGetSurveyProperties} \alias{lsGetSurveyProperties} \title{Get survey properties} \usage{ lsGetSurveyProperties( surveyID, properties = NULL, lsAPIurl = getOption("lsAPIurl"), sessionKey = NULL ) } \argu...
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#1 random_uni<-function(seed){ x<<-c() for(i in 1:100){ seed <- (16807*seed)%%2147483647 x[i]<<-seed/2147483647 } x } random_uni(2020) ks.test(random_uni(2020),runif(100)) install.packages("snpar") library('snpar') runs.test(random_uni(2020)) #2 length(which(rbinom(1000,6,0.2)>=1))/1000 mean(rbinom(10...
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% Generated by roxygen2: do not edit by hand % Please edit documentation in R/paws.ses_operations.R \name{create_configuration_set} \alias{create_configuration_set} \title{Creates a configuration set} \usage{ create_configuration_set(ConfigurationSet) } \arguments{ \item{ConfigurationSet}{[required] A data structure th...
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rm(list=ls()) emails=read.csv("C:/Users/Zahid/Downloads/energy_bids.csv", stringsAsFactors=FALSE) str(emails) emails$email[1] emails$responsive[1] emails$email[2] emails$responsive[2] table(emails$responsive) library(tm) corpus=Corpus(VectorSource(emails$email)) corpus[[1]] corpus=tm_map(corpus, tolower) corpus=tm_map(...
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assgnWMean <- function(val, nm) { # assign a value to node_obj multiple times # if value already present, work out mean if(is.null(node_obj[[txid]][[nm]])) { node_obj[[txid]][[nm]] <- val } else { # otherwise get mean node_obj[[txid]][[nm]] <- (node_obj[[txid]][[nm]] + val)/2 } } getTree <-...
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oecd <- read_csv("finalproject/oecd_data.csv", col_types = cols(LOCATION = col_character(), INDICATOR = col_character(), SUBJECT = col_character(), MEASURE = col_character(), ...
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#' Aitchison distance #' #' Computes the Aitchison distance between two observations, between two data #' sets or within observations of one data set. #' #' This distance measure accounts for the relative scale property of #' compositional data. It measures the distance between two compositions if #' \code{x} and \co...
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##example dataset ## 11 means more than 10 -> means may not be accurate! df <- data.frame( place=c(rep("ZOL",4), rep("ZOL",4), rep("THU",6)), plot=c(rep(1,4), rep(2,2), rep(1,6) ), subplot=c(rep(2,4), rep(3,2), rep(2,6)), species=c(rep("linum",6), rep("linum",4), rep("silene",2)), rep=c(1:4,1:2, 1:4, 1:2)...
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.setUp <- function() { } .tearDown <- function() { } unitTestSetDims <- function() { df <- new(Class="BigDataFrame", hdfFile=tempfile(fileext=".h5")) checkTrue(all(dim(df) == 0)) checkEquals(length(dim(df)), 2) dim(df) <- c(0,0,0) checkTrue(all(dim(df) == c(0,0))) dim(df) <- c(1,1) checkTrue(all(dim(df...
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library(ggplot2) library(cowplot) library(rnaturalearth) library("rnaturalearthdata") theme_set(theme_cowplot()) library(readr) library(dplyr) library(tidyr) library(RColorBrewer) library(ggtree) world <- ne_countries(scale = "small", returnclass = "sf") # sampled points spoints = read_csv("~/Dropbox/Encelia/analysis...
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\name{getDoTerm} \alias{getDoTerm} \title{ Get DO term's name } \description{ Returns the list of DO term's name associated to each DO ID. } \usage{ getDoTerm(dolist) } %- maybe also 'usage' for other objects documented here. \arguments{ \item{dolist}{ character vector of DO IDs } } \value{ List with entry names f...
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% Generated by roxygen2: do not edit by hand % Please edit documentation in R/reductions.R \docType{class} \name{Canonicalization-class} \alias{Canonicalization-class} \alias{.Canonicalization} \alias{perform,Canonicalization,Problem-method} \alias{invert,Canonicalization,Solution,InverseData-method} \alias{canonicaliz...
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# Working with factors # Filename: factors.R # Author: prhodes ############################################################################### # factors are for storing "categorical" data (ex, "male" and "female" or "small", "medium", "large", etc.) # if you create a data frame with a column of text data, R will assu...
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FLVoters.R
''' Note that there were some parts that were buggy ''' #Load Data #census data cnames<-read.csv("cnames.csv") head(cnames) #Florida census data FLCensus<-read.csv("FLCensusDem.csv") head(FLCensus) FLVoters<-read.csv("FLVoters.csv") head(FLVoters) FLCensusVTD<-read.csv("FLCensusVTD.csv") head(FLCensusVTD) #1) sp...
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library(suncalc) ### Name: getMoonTimes ### Title: Get Moon times ### Aliases: getMoonTimes ### ** Examples # one date getMoonTimes(date = Sys.Date(), lat = 47.21, lon = -1.557, tz = "CET") # multiple date + subset getMoonTimes(date = seq.Date(Sys.Date()-9, Sys.Date(), by = 1), keep = c("rise", "set", "alwaysU...
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## @knitr HW1point6 #### Exercise 1.6 #### X <- read.table('http://web.stanford.edu/~xing/statfinbook/_BookData/Chap06/w_logret_3stocks.txt', header=T) # Convert Date column from a factor to an R date X[,1]<-as.Date(X[,1],"%m/%d/%Y") ## @knitr a1_6_1 #### 1.6 (a) #### # Plot Pfizer returns and add lines to highlight b...
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an_environment <- new.env() an_environment[["pythag"]] <- c(12, 15, 20, 21) an_environment$root <- polyroot(c(6, -5, 1)) assign( "moonday", weekdays(as.Date("1969/07/20")), an_environment ) an_environment[["pythag"]] an_environment$root ls(envir = an_environment) ls.str(envir = an_environment) exists("pythag...
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library(shiny) shinyUI( navbarPage("Best Spanish Books Word Cloud", tabPanel("Detail", h2("Spanish Best Books Word Cloud"), hr(), h3("Description"), helpText("This is an application that gives a Word Cloud Analysis o...
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# Function to extract measures from iots into a .csv file # Created by: Sybren Deuzeman # Maintained by: GGDC # First version May 2019 # Current version: 11 June 2019 #' @import tcltk #' @title Make a CSV file from measures in IOTs #' @description Function to extract measures from IOTs into a CSV file #' @param mea...
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02-anaResults.R
# 02-anaResults.R rm(list=ls()) library(xtable) str.id <- 'FY26H-09-01' # str.mode <- 'raw' str.mode <- 'ellipse' str.wd <- "~/work/qm12-02d-02/R/R/" i.digits <- 4 # png dimentions png.w=800 png.h=600 # should not need to change below here... # set up functions # compute the standard error stderr <- function(x) sq...
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gsubMult = function(patterns, replacements, x, ignore.case = FALSE, perl = FALSE, fixed = FALSE, useBytes = FALSE) { for (i in 1:length(patterns)){ x = gsub(patterns[i],replacements[i],x, ignore.case, perl, fixed, useBytes) } return(x) } #paste to directory...
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generateVarpepSAAVs.R
# Format and generate variant peptide and SAAV data formatVarpepAndSAAVs <- function(var.pep.df, saav.colname, pro.colname, var.colname, dbsnp.colname, pep.format.colname, pep.seq.colname, to.remove.colnames, group.by.cols) { var.pep.df[,saav.colname] <- do.call(paste, c(var.pep.df[c(pr...
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% Generated by roxygen2: do not edit by hand % Please edit documentation in R/check_files.R \name{check_files} \alias{check_files} \title{Check for the existence of a vector of files, optionally repeated for a set amount of time.} \usage{ check_files(filenames, folder = "", warn_only = FALSE, continual = FALSE...
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\name{dateCheck} \alias{dateCheck} \alias{getHH} \title{ Checks date format. } \description{ Checks that the character form of a vector of dates conforms to YYYYMMDDHH or YYYYMMDD. } \usage{ dateCheck(YYYYMMDDHH) } \arguments{ \item{YYYYMMDDHH}{ A character vector (or its factor equivalent) of dates whi...
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% Generated by roxygen2: do not edit by hand % Please edit documentation in R/league.R \name{player_scores} \alias{player_scores} \title{Player scores for active league} \usage{ player_scores( week = NULL, season = NULL, player_id = NULL, position = NULL, status = NULL, rules = NULL, count = NULL ) } \des...
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# Instala pacote - CUIDADO, necessita dos pacotes gdal-bin e libgdal-dev no linux install.packages(c("OpenStreetMap")) # Carrega pacote library(OpenStreetMap) # Gera um mapa mundial simples map <- openmap( upperLeft = c(85.0, -180.0), lowerRight = c(-85.0, 180.0), type = "osm" ) # Cria projeção do mapa, para...
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library("forecast") Amtrak.data <- read.csv("C:\\Users\\jrmerric\\Dropbox\\Teaching\\Exec Ed\\Decision Analytics\\Forecasting\\2017\\Amtrak data.csv") ridership.ts <- ts(Amtrak.data$Ridership, start = c(1991,1), end = c(2004, 3), freq = 12) plot(ridership.ts) nValid <- 36 nTrain <- length(ridership.ts) - n...
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\name{SeqDataFrames-class} \docType{class} \alias{SeqDataFrames-class} \alias{SeqDataFrames} \alias{seqDataFrames} \alias{obsdimnames} \alias{obsdimnames-method} \alias{obsdimnames,SeqDataFrames-method} \alias{obsdimnames<-,SeqDataFrames-method} \alias{names,SeqDataFrames-method} \alias{names<-,SeqDataFrames-...
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#Parameters initDate = "2001-01-01" # In sample from="2012-01-01" to = "2013-01-01" #decisions BuyChange<-0.1 sellChange<--0.2 buyRSi<-70 sellRsi<-30 BuyCci<-60 SellCci<-20 buyBbanbs<-0.7 sellBbands<-0.3 thresholdVol <- 0 initEq = 50000 # initialize the portfolio and download data source('~/Project/R/initialize.R') ...
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#Load libraries library(readr) library(dplyr) library(chron) library(lubridate) #Load dataset from file ds<- read.csv2(file="household_power_consumption.txt",header = TRUE, sep=";", na.strings=c("?"), stringsAsFactors = FALSE) #Create dataset with new field DateandTime hhpc_total<- mutate(ds, DateandTime = as.POSIXct...
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# Prepare workspace ------------------------------------------------------- pkgconfig::set_config("drake::strings_in_dots" = "literals") library(magrittr) library(foreach) library(drake) # load functions f <- lapply(list.files("code", full.names = T), source) n_replicates <- 99 transformation <- function(x) log(x +...
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% Generated by roxygen2: do not edit by hand % Please edit documentation in R/dataflow_objects.R \name{SeqMapTask.userFn} \alias{SeqMapTask.userFn} \title{SeqMapTask.userFn Object} \usage{ SeqMapTask.userFn() } \value{ SeqMapTask.userFn object } \description{ SeqMapTask.userFn Object } \details{ Autogenerated via \code...
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## This is a horrible hack, and should be rewritten to use the lmer internals. ## But in the meantime: we make the fixed effects model matrix, then call the formula method for lmer/glmer ## This is to allow us to do arbitrary LRT tests and add/drop columns of the design ## Details: ## Invariants: ## 1. model.matrix co...
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\name{plot_hierarchy_shape} \alias{plot_hierarchy_shape} \title{ Plots the shape of a dominance hierarchy from empirical data } \description{ This function takes a set of winners and losers from observed interactions and plots the probability of the dominant individual in an interaction winning given the difference in ...
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library(mipfp) ### Name: confint.mipfp ### Title: Computing confidence intervals for the mipfp estimates ### Aliases: confint.mipfp ### Keywords: multivariate ### ** Examples # true contingency (2-way) table true.table <- array(c(43, 44, 9, 4), dim = c(2, 2)) # generation of sample, i.e. the seed to be updated seed...
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### Given the problems encountered with lapply in xaringan files generation, avoid laply and go for a loop for(f in list.files('_posts/', recursive = TRUE, pattern = '.Rmd', full.names = TRUE)) rmarkdown::render(f) rmarkdown::render_site(encoding = 'UTF-8')
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library(lessR) ### Name: simCLT ### Title: Pedagogical Simulation for the Central Limit Theorem ### Aliases: simCLT ### Keywords: central limit theorem ### ** Examples # plot of the standardized normal # and corresponding sampling distribution with 10000 samples # each of size 2 simCLT(ns=1000, n=2) # plot of t...
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library(IMIFA) ### Name: G_priorDensity ### Title: Plot Pitman-Yor / Dirichlet Process Priors ### Aliases: G_priorDensity ### Keywords: plotting ### ** Examples # Plot Dirichlet process priors for different values of alpha (DP <- G_priorDensity(N=50, alpha=c(3, 10, 25))) # Non-zero discount requires loading the ...
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tech <- read.csv(file.choose(),header=T) View(tech) #function for calculating Cramer's v cramer <- function(y,x){ K <- nlevels(y) L <- nlevels(x) n <- length(y) chi2 <- chisq.test(y,x,correct=F) print(chi2$statistic) v <- sqrt(chi2$statistic/(n*min(K-1,L-1))) return(v) } #similarity matrix sim <- matrix...
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dlf <- function (f, url, msg = NULL, mode = "wb", quiet = F, ...) { err <- 0 if (mode == "wb" || !file.exists(f) || file.info(f)$size == 118) { if (!file.exists(dirname(f))) try(dir.create(dirname(f), recursive = T)) if (!is.null(msg)) cat(msg, "\n") err <- try(download.file(url, des...
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% Generated by roxygen2: do not edit by hand % Please edit documentation in R/writeMgf.R \name{writeMgf} \alias{writeMgf} \title{A function that export mgf file from filename, precursor mz, and a peak table.} \usage{ writeMgf(file, precursor, peak.table, charge = "+1") } \arguments{ \item{file}{A file name for MGF file...
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## utilities --------------------------------------------------------------- library(tidyverse) library(fs) library(futile.logger) not_null <- negate(is_null) `%<>%` <- magrittr::`%<>%` ## read data --------------------------------------------------------------- #DATA_DIR <- path("/media", "garrett", "ExtraDrive1", "d...
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library(shiny) # shinyUI(fluidPage( # # titlePanel("Slovenske občine"), # # tabsetPanel( # tabPanel("Velikost družine", # DT::dataTableOutput("druzine")), # # tabPanel("Število naselij", # sidebarPanel( # uiOutput("pokrajine") # ...
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library(tidyverse) library(PerformanceAnalytics) library(caret) housing_price <- read.csv("/Users/muhammadshahid/Desktop/ASS05_Data.csv") df <- data.frame(housing_price) # Part1 part1 <- function(df, p){ n <- nrow(df) shuffled_df <- df[sample(n), ] train_indices <- 1:round(p * n) train <- shuffled_df[train_indi...
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# Installation ## Packages list.of.packages <- c("parasiteLoad", "bbmle", "devtools", "optimx", # for bbmle it needs to be required(?) "ggplot2", "VennDiagram", "fitdistrplus", # evaluate...
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% Generated by roxygen2: do not edit by hand % Please edit documentation in R/make_map.R \name{make_map} \alias{make_map} \title{make_map} \usage{ make_map(chr, ref_file, rs_file, output_path) } \arguments{ \item{chr}{chromosome number} \item{ref_file}{Ref file of your vcf data} \item{rs_file}{Reference file contains...
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% Generated by roxygen2: do not edit by hand % Please edit documentation in R/constructAbstractSQL.R \name{createView} \alias{createView} \title{Create View} \usage{ createView(pViewName, pSelect, pDatabase = getOption("ResultDatabaseFL"), ...) } \arguments{ \item{pViewName}{Name of view} \item{pSelect}{SELECT clause ...
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# library(stringr) # library(tm) # library(dplyr) # library(tidytext) # library(broom) commonMistakes <- function(truthTrain, ocrTrain){ groundTruth <- array(NA, c(1, length(truthTrain))) for(x in 1:length(truthTrain)) groundTruth[,x] <- readChar(truthTrain[x], file.info(truthTrain[x])$size) groundTruth <- st...
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% Generated by roxygen2: do not edit by hand % Please edit documentation in R/JunctionDetection.R \name{checkBreakPoints} \alias{checkBreakPoints} \title{checkBreakPoints} \usage{ checkBreakPoints(candidateNodes, allPaths, nodeGraph, terminalNodes, dims) } \arguments{ \item{candidateNodes}{possible breakpoints...
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% Generated by roxygen2: do not edit by hand % Please edit documentation in R/plot-diet.R \name{plot_diet} \alias{plot_diet} \title{Plot contribution of diet contents for each functional group.} \usage{ plot_diet(bio_consumed, species = NULL, wrap_col = "agecl", combine_thresh = 7) } \arguments{ \item{bio_consumed}{C...
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#PAGE=50 a=c(250,260,270,280,290,300,310) b=c(259.99,269.99,279.99,289.99,299.99,309.99,319.99) c=c(a,320) c n=c(8,10,16,14,10,5,2) n=c(n,0) n1=sum(n) n4=rep(c,n) n4 d0=n[7] d1=n[7]+n[6] d2=d1+n[5] d3=n[4]+d2 d4=n[3]+d3 d5=n[2]+d4 d6=n[1]+d5 d=c(0,d0,d1,d2,d3,d4,d5,d6) d=rev(d) d c e=c('or more',...
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library(shinydashboard) library(DT) library(shiny) library(shinyWidgets) library(rhandsontable) library(quantmod) shinyUI(dashboardPage(skin = "black" , dashboardHeader(title = "Portfolio Allocation Demo"), dashboardSidebar( sid...
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testlist <- list(data = structure(c(-8.65145885556673e+303, 2.27541883785622e-317, 1.32548933609124e-309, 1.67141905462553e-112, 3.52953630161737e+30, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0), .Dim = 5:6), q = 0) result <- do.call(biwavelet:::rcpp_row_quantile,testlist) str(result)
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# rm(list=ls()) library(dplyr) library(reshape2) library(ggplot2) df = read.csv("E:/TESIS/process/results.csv", sep = ",", header = T) df2 = df %>% filter(ts != "1981-01-01" & ts != "1982-01-01" & ts != "1983-01-01" & ts != "1985-01-01" & ts != "2016-01-01") df3 = df2 %>% select(-r_c3_ls1_sdr1, -r_c3_ls1_sdr2, -r_c3_...
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\name{contributionBars} \alias{contributionBars} %- Also NEED an '\alias' for EACH other topic documented here. \title{ contributionBars } \description{ Produces bar charts for multivariate analyses. Plots the contribution to the variance from each data point for upwards of two axes (components). } \usage{ contribution...
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#Source the datafile (updates it) source("code/Data_save.R") updateData() # load the required packages library(shiny) require(shinydashboard) library(tidyverse) library(scholar) library(timevis) library(tm) library(wordcloud) library(rsconnect) library(readr) ########################### #Build shinyapp #UI ui <- dashb...
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### hisafe water module parameter optimization ### Author: Kevin J. Wolz library(hisafer) library(tidyverse) library(parallel) library(DEoptim) library(plotly) N.ITER <- 3 TRACE <- TRUE YEARS <- 1994 METHOD <- "DISCRETE" # TOTAL CROPS <- c("durum-wheat-restinclieres", "weed-restinclieres", "rape", "winter-pea") B...
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library(magrittr) # source('./R/functions/read_data.R') # source('./R/functions/ppt_output.R') consensus <- pamngr::get_data("nfp tch", flds = "BN_SURVEY_MEDIAN") %>% dplyr::left_join(pamngr::get_data('usurtot', flds = "BN_SURVEY_MEDIAN"), by = "dates") %>% dplyr::left_join(pamngr::get_data('ahe yoy%', flds = "BN...
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meta_bag <- function( Xtrain, # This is a matrix, contains train data, data_cols only Xtest, # This is a matrix, contains train data, data_cols only y, # contains target vars model_dir, # we will make this directory if it doesn't exist n_models, # to...
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as.dataset <- function(name, values){ list( name = name, values = values ) } as.distribution <- function(name, pdf, cdf, nparams, lower, upper){ list( name = name, pdf = pdf, cdf = cdf, nparams = nparams, lower = lower, upper = upper, ) }
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n = dim(missing_data)[1] dat <- missing_data #Create a function to generate a continuous color palette rbPal <- colorRampPalette(c('red','blue')) #This adds a column of color values # based on the y values dat$Col <- rbPal(10)[as.numeric(cut(dat$percent_missing,breaks = 10))] plot(dat$percent_missing,dat$percent...
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% Generated by roxygen2: do not edit by hand % Please edit documentation in R/utilities.R \name{is.diag_resid} \alias{is.diag_resid} \title{Check is class} \usage{ is.diag_resid(x) } \arguments{ \item{x}{A \code{diag_resid} object} } \value{ A \code{boolean} indicating \code{TRUE} or \code{FALSE} } \description{ Perfor...
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testlist <- list(doy = c(3.01409667740156e-243, -3.20180237041553e-60, 3.01425161743895e-243, NaN, -6.8576842040592e+303, 1.36446060005412e-317, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0),...
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% Generated by roxygen2: do not edit by hand % Please edit documentation in R/differential_gi_calls.R \name{differential_gi_analysis} \alias{differential_gi_analysis} \title{Differential Genetic Interaction analysis} \usage{ differential_gi_analysis(gi_data, fdr_cutoff = 0.05, delta_gi_cutoff = 0, require_sign_change...
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# Create data frame with iso3 country codes and a drug measure # x data frame (DF) edition instructions: # Step 1: Identify and write the iso3 codes of interest countries in the "country" column # Step 2: Associate countries with desired drug measure in the "drug_measure" column x <- data.frame(country = c("AUS", "JP...
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\name{rcalibration_MS} \alias{rcalibration_MS} %\alias{show.rgasp} \alias{rcalibration_MS-method} %- Also NEED an '\alias' for EACH other topic documented here. \title{ Setting up the robust Calibration model for multiple sources data %% ~~function to do ... ~~ } \description{ %% ~~ A concise (1-5 lines) description ...
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eps <- sqrt(.Machine$double.eps) ## build_ipTemplate: ## ## Creates an inducing points design optimized with ALC or wIMSE, ## then is returned centered at the origin build_ipTemplate <- function(X = NULL, Y = NULL, M, N, theta = NULL, g = 1e-4, method = c('wimse','alc'), ...
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## ----setup, include = FALSE--------------------------------------------------- library(nhdplusTools) local <- (Sys.getenv("BUILD_VIGNETTES") == "TRUE") if(local) { cache_path <- file.path(nhdplusTools_data_dir(), "index_v") } else { cache_path <- tempdir() } knitr::opts_chunk$set( collapse = TRUE, ...
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models-nlme.R
# Note: predict.lme throws errors if formula is created in `lme` function call. # Need to use eval and substitute to get around this. # Reference: https://stat.ethz.ch/pipermail/r-help/2003-January/029199.html fit_ind_lm <- function(data) { output <- data %>% group_by(bid) %>% nest() %>% mutate(fit =...
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% Generated by roxygen2: do not edit by hand % Please edit documentation in R/print.FSA.R \name{print.FSA} \alias{print.FSA} \title{Printing function for FSA solutions} \usage{ \method{print}{FSA}(x, ...) } \arguments{ \item{x}{FSA object to print details about.} \item{...}{arguments to be passed to other functions.} ...
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ClassifierModels.Rd
% Generated by roxygen2: do not edit by hand % Please edit documentation in R/crossValidation.R \name{ClassifierModels} \alias{ClassifierModels} \title{Run a set of classification models on input training, test data sets} \usage{ ClassifierModels(data.train, targetValues, data.test, models, kFolds = 2, repeats = 5, t...
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quiz.R
# 1 # dat <- read.csv("housing.csv") # a <- dat(dat, VAL==24) # Rta = 53 # 3 # RTA = 36534720 # 4 require(XML) dat <- xmlParse("http://d396qusza40orc.cloudfront.net/getdata%2Fdata%2Frestaurants.xml") xml_data <- xmlToList(dat) xml_data <- xml_data[[1]] a <- unlist(lapply(xml_data, function(x) x$zipcode == "21231"...
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\name{RcmdrPlugin.RiskDemo-package} \alias{RcmdrPlugin.RiskDemo-package} \alias{RcmdrPlugin.RiskDemo} \docType{package} \title{ R Commander Plug-in for Risk Demonstration } \description{ R Commander plug-in to demonstrate various actuarial and financial risks. It includes valuation of bonds and stocks, portfolio optimi...
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permcoefs.plsRnp.R
permcoefs.plsRnp <- function(dataRepYtt,ind,nt,modele,maxcoefvalues,wwetoile,ifbootfail){ dataRepYb=dataRepYtt[ind,1] Tb=dataRepYtt[,-1] tempCb=try(solve(t(Tb)%*%Tb)%*%t(Tb)%*%dataRepYb,silent=TRUE) tempcoefs <- rbind(Intercept=0,wwetoile%*%tempCb) Cond <- FALSE try(Cond<-is.numeric(tempcoefs)&all(abs(tempcoefs...
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/modeling1.R
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xinyizhao123/Predicting-Future-Ambient-Ozone
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modeling1.R
####################################################### # This program is to perform modeling for the dataset # Programmer: Xinyi Zhao # Date: 01/23/2016 ####################################################### #setwd("C:/Users/zhaohexu/Dropbox/Ozone project") #setwd("C:/Users/Hitomi/Dropbox/Ozone project") #in...
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mingkaijiang/EucFACE_Carbon_Budget
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2020-09-03T03:43:00.823064
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r
prepare_tair_rh_par_data.R
prepare_tair_rh_par_data <- function(timestep) { #### Download the data - takes time to run myDF <- download_tair_rh_par_data() #### Assign ring information myDF$Ring <- sub("FACE_R", "", myDF$Source) myDF$Ring <- sub("_T1.*", "", myDF$Ring) myDF$Ring <- as.numeric(myDF$Ring) myDF <- ...
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find_cpt.R
find_cpt <- function(data, patient, c_input, b0_input, b1_input) { pat <- patient y <- data %>% filter(PID==pat) %>% .$y x <- data %>% filter(PID==pat) %>% .$x mod <- nls(y~fx(x,c,b0,b1), start=c("c"= c_input,"b0"= b0_input,"b1"= b1_input), control=nls.control(warnOnly = TRUE,minFactor = 1e-2...
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compare_sources.R
#' Compare dietary proportions between multiple sources #' #' This function takes in an object of class \code{simmr_output} and creates #' probabilistic comparisons between the supplied sources. The group number can #' also be specified. #' #' When two sources are specified, the function produces a direct calculation #...
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clusterizacion.R
#TO DO #VER COMO IMPLEMENTAR LA FUNCION SAMPLE EN C! #/////////////// #CONFIGURACIONES #/////////////// #--------------------------- #Configuraciones del dataset #--------------------------- poblacion = 100; pm = c(0.1, 0.1, 0.1); #probabilidad de mutacion pc = 0.1; #probabilidad de single-point crossover generacione...
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remove_model_failures.R
require(ggplot2) modeled_file = "logistic_growth.tab" classes = c("numeric","numeric","character","factor", #Row Col Name Media "factor","factor", "factor", "character", # Temp Array(1-6) Condition Well "character","character","character"...
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hms-dbmi/Rcupcake
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z.score.R
#' Transform continuous in categorical variables and generates a new \code{cupcakeData} object. #' #' Given an object of class \code{cupcakeData}, it transforms continuous into categorical variable #' applying Z-score. As a result a new \code{cupcakeData} object is generated. Note that if the number #' of individuals ...
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/SoundMetric_QDA.R
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SoundMetric_QDA.R
################################################################################## # MIR Study (no removal of outliers) # USES linear and quadratic discriminant analysis # Research question? Can we use spectral features to determine soundscape class? # Kristen Bellisario # with additional help from Zhao Zhao, Cristan G...