Nothing
library(knitr) opts_chunk$set(echo=FALSE, results='asis', fig.align='center', fig.width=14, warning = FALSE) # TO DO add warning = FALSE later library(xtable) source("ggtheme.R") print_table <- function(x) print(xtable(x), type = "html", sanitize.colnames.function = function(x) x, digits = 4, include.rownames = FALSE)
Report generated on r Sys.time()
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Detected input file: r ifelse(is.null(input[["input_file"]][["name"]]), "none", input[["input_file"]][["name"]])
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cat("MD5 sum of the input file:", ifelse(is.null(input[["input_file"]][["name"]]), "none", tools::md5sum(input[["input_file"]][["datapath"]])))
Confidence level: r input[["conf_level"]]
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Type of analysis: r ifelse(input[["conf_level"]], "separate experiments", "technical replicates")
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Models selected: r paste0(countfitteR:::nice_model_names[input[["chosen_models"]]], collapse = ", ")
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if(input[["mean_value_rep"]]) { cat("\n",readLines("../readmes/mean_value/1.md"), sep = " \n") plot(countfitteR:::plot_fitlist(fits()) + cf_theme) cat("\n",readLines("../readmes/mean_value/2.md"), sep = " \n") fit_tab_dt() }
if(input[["coef_rep"]]) { cat("\n", readLines("../readmes/mean_value/3.md"), sep = " \n") coef_tab_dt() }
if(input[["decision_rep"]]) { cat("\n", readLines("../readmes/mean_value/4.md"), sep = " \n") cat(countfitteR:::decide(summarized_fits(), input[["sep_exp"]])) }
if(input[["cmp_distr_rep"]]) { cat("\n", readLines("../readmes/cmp_distr/1.md"), sep = " \n") plot(countfitteR:::plot_fitcmp(compared_fits()) + cf_theme) cat("\n") cmp_sep_tab() }
pander::pander(sessionInfo())
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