Mercurial > repos > artbio > ez_histograms
changeset 0:bdf40b0924cb draft
planemo upload for repository https://github.com/artbio/tools-artbio/tree/main/tools/ez_histograms commit 443759a746f78d67dc4ffcafdc6610d09d278846
| author | artbio |
|---|---|
| date | Wed, 07 Feb 2024 19:49:56 +0000 |
| parents | |
| children | fbedb212982d |
| files | ez_histograms.R ez_histograms.xml test-data/classic.pdf test-data/classic.tsv test-data/count.pdf test-data/counts.tsv test-data/headless.pdf test-data/headless.tsv test-data/large.pdf test-data/large.tsv test-data/rowheadless.pdf test-data/rowheadless.tsv test-data/single_headed_col.pdf test-data/single_headed_col.tsv test-data/summary_1.tsv test-data/summary_2.tsv test-data/summary_3.tsv test-data/summary_4.tsv test-data/summary_5.tsv test-data/summary_6.tsv |
| diffstat | 20 files changed, 38298 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/ez_histograms.R Wed Feb 07 19:49:56 2024 +0000 @@ -0,0 +1,169 @@ +library(ggplot2) +library(reshape2) +library(dplyr) +library(scales) +library(vtable) +library(optparse) + +options(show.error.messages = FALSE, + error = function() { + cat(geterrmessage(), file = stderr()) + q("no", 1, FALSE) + } +) + +loc <- Sys.setlocale("LC_MESSAGES", "en_US.UTF-8") +warnings() + +option_list <- list( + make_option( + c("-f", "--file"), + default = NA, + type = "character", + help = "Input file that contains count values to transform" + ), + make_option( + c("-d", "--profile"), + default = "count", + type = "character", + help = "Whether y-axis shows absolute counts or density: 'count' or 'density' [default : '%default' ]" + ), + make_option( + "--xscale", + default = "cartesian", + type = "character", + help = "Whether x-axis is 'cartesian', 'log2' or 'log10' [default : '%default' ]" + ), + make_option( + "--yscale", + default = "cartesian", + type = "character", + help = "Whether y-axis is 'cartesian', 'log2' or 'log10' [default : '%default' ]" + ), + make_option( + c("-p", "--pdf"), + default = "histograms.pdf", + type = "character", + help = "Output pdf file name [default : '%default' ]" + ), + make_option( + c("-s", "--summary"), + default = "summary.tsv", + type = "character", + help = "statistics summary file name [default : '%default' ]" + ) +) + +opt <- parse_args(OptionParser(option_list = option_list), + args = commandArgs(trailingOnly = TRUE)) + +plot_histograms <- function(mdata, profile = "count", xscale = "cartesian", yscale = "cartesian", bins = 30) { + if (profile == "count") { + # count histogram + p <- ggplot(mdata, aes(x = value, fill = variable, color = variable, y = after_stat(count)), show.legend = FALSE) + + geom_histogram(bins = bins) + theme(legend.position = "none") + if (xscale == "cartesian") { + if (yscale == "log2") { + p <- p + scale_y_continuous(trans = "log2", labels = trans_format("log2", math_format(2^.x))) + } else { + if (yscale == "log10") { + p <- p + scale_y_continuous(trans = "log10", labels = trans_format("log10", math_format(10^.x))) + } + } + } + if (xscale == "log2") { + p <- p + scale_x_continuous(trans = "log2", labels = trans_format("log2", math_format(2^.x))) + if (yscale == "log2") { + p <- p + scale_y_continuous(trans = "log2", labels = trans_format("log2", math_format(2^.x))) + } else { + if (yscale == "log10") { + p <- p + scale_y_continuous(trans = "log10", labels = trans_format("log10", math_format(10^.x))) + } + } + } + if (xscale == "log10") { + p <- p + scale_x_continuous(trans = "log10", labels = trans_format("log10", math_format(10^.x))) + if (yscale == "log2") { + p <- p + scale_y_continuous(trans = "log2", labels = trans_format("log2", math_format(2^.x))) + } else { + if (yscale == "log10") { + p <- p + scale_y_continuous(trans = "log10", labels = trans_format("log10", math_format(10^.x))) + } + } + } + } + + if (profile == "density") { + # density histogram + p <- ggplot(mdata, aes(x = value, fill = variable, color = variable)) + + geom_density() + theme(legend.position = "none") + if (xscale == "log2") { + p <- p + scale_x_continuous(trans = "log2", labels = trans_format("log2", math_format(2^.x))) + } + if (xscale == "log10") { + p <- p + scale_x_continuous(trans = "log10", labels = trans_format("log10", math_format(10^.x))) + } + } + return(p) +} + +test_header <- function(file) { + data <- read.delim(file = file, header = FALSE, row.names = 1, nrows = 2) + if (all(is.na(as.numeric(data[1, seq_len(ncol(data))])))) { + return(TRUE) + } else { + return(FALSE) + } +} + +test_rownames <- function(file) { + data <- read.delim(file = file, header = FALSE, row.names = NULL, nrows = 2) + if (is.na(as.numeric(data[2, 1]))) { + return(1) + } else { + return(NULL) + } +} + +##### prepare input data +data <- read.delim(file = opt$file, header = test_header(opt$file), row.names = test_rownames(opt$file)) +data <- data %>% select(where(is.numeric)) # remove non numeric columns +mdata <- melt(data) + +##### main + +# determine optimal number of bins (Sturges’ Rule) +bins <- ceiling(log2(nrow(data)) + 1) +# plot +p <- plot_histograms(mdata, profile = opt$profile, xscale = opt$xscale, bins = bins, yscale = opt$yscale) + +# determine optimal width for the graph +width <- length(data) +width <- case_when( + width == 1 ~ 14 / 3, + width == 2 ~ (2 / 3) * 14, + TRUE ~ 14 +) +# determine optimal height for the graph +height <- length(data) +height <- case_when( + height <= 3 ~ 3, + height <= 6 ~ 6, + TRUE ~ (floor(height / 3) + 1) * 3 +) +# determine optimal number of col for the graph +ncol <- length(data) +ncol <- case_when( + ncol == 1 ~ 1, + ncol == 2 ~ 2, + TRUE ~ 3 +) +pdf(opt$pdf, width = width, height = height) +print(p + facet_wrap(~variable, ncol = ncol, scales = "free")) +dev.off() + +# Summary statistics with vtable package +summary_df <- sumtable(data, digits = 8, out = "return", add.median = TRUE, + summ.names = c("N", "Mean", "Std. Dev.", "Min", "Pctl. 25", + "Median", "Pctl. 75", "Max")) +write.table(summary_df, file = opt$summary, sep = "\t", quote = FALSE, row.names = FALSE)
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/ez_histograms.xml Wed Feb 07 19:49:56 2024 +0000 @@ -0,0 +1,166 @@ +<tool id="ez_histograms" name="ez_histograms" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@"> + <macros> + <token name="@TOOL_VERSION@">3.4.4</token> + <token name="@VERSION_SUFFIX@">0</token> + <token name="@PROFILE@">23.0</token> + </macros> + <requirements> + <requirement type="package" version="3.4.4">r-ggplot2</requirement> + <requirement type="package" version="1.4.4">r-reshape2</requirement> + <requirement type="package" version="1.1.4">r-dplyr</requirement> + <requirement type="package" version="1.3.0">r-scales</requirement> + <requirement type="package" version="1.4.6">r-vtable</requirement> + <requirement type="package" version="1.7.4">r-optparse</requirement> + </requirements> + + <stdio> + <exit_code range="1:" level="fatal" /> + </stdio> + + <command detect_errors="exit_code"><![CDATA[ + Rscript $__tool_directory__/ez_histograms.R + --file '$file' + --profile '$plot_options.plot_options_selector' + --xscale '$plot_options.xscale' + #if str($plot_options.plot_options_selector) == "count": + --yscale '$plot_options.yscale' + #end if + --pdf '$pdf' + --summary '$summary' + ]]></command> + + <inputs> + <param name="file" type="data" format="tabular" label="Input tabular dataset" + help="Only numeric columns will be plotted"/> + <conditional name="plot_options"> + <param name="plot_options_selector" type="select" label="Set plot types"> + <option value="count" selected="true">Count Histograms</option> + <option value="density">Density Plots</option> + </param> + <when value="density"> + <param name="xscale" type="select" label="Set x-axis scale"> + <option value="cartesian" selected="true">Cartesian</option> + <option value="log2">log2</option> + <option value="log10">log10</option> + </param> + </when> + <when value="count"> + <param name="xscale" type="select" label="Set x-axis scale"> + <option value="cartesian" selected="true">Cartesian</option> + <option value="log2">log2</option> + <option value="log10">log10</option> + </param> + <param name="yscale" type="select" label="Set y-axis scale"> + <option value="cartesian" selected="true">Cartesian</option> + <option value="log2">log2</option> + <option value="log10">log10</option> + </param> + </when> + </conditional> + </inputs> + <outputs> + <data name="pdf" format="pdf" label="${tool.name} plots from ${on_string}"/> + <data name="summary" format="tabular" label="Statistics Summary from ${on_string}"/> + </outputs> + <tests> + <test expect_num_outputs="2"> + <param name="file" value="classic.tsv"/> + <param name="plot_options_selector" value="count"/> + <param name="xscale" value="cartesian"/> + <param name="yscale" value="cartesian"/> + <output name="pdf" file="classic.pdf"/> + <output name="summary" file="summary_1.tsv"/> + </test> + <test expect_num_outputs="2"> + <param name="file" value="counts.tsv"/> + <param name="plot_options_selector" value="count"/> + <param name="xscale" value="log2"/> + <param name="yscale" value="cartesian"/> + <output name="pdf" file="count.pdf"/> + <output name="summary" file="summary_2.tsv"/> + </test> + <test expect_num_outputs="2"> + <param name="file" value="headless.tsv"/> + <param name="plot_options_selector" value="count"/> + <param name="xscale" value="log10"/> + <param name="yscale" value="log2"/> + <output name="pdf" file="headless.pdf"/> + <output name="summary" file="summary_3.tsv"/> + </test> + <test expect_num_outputs="2"> + <param name="file" value="large.tsv"/> + <param name="plot_options_selector" value="density"/> + <param name="xscale" value="log2"/> + <output name="pdf" file="large.pdf"/> + <output name="summary" file="summary_4.tsv"/> + </test> + <test expect_num_outputs="2"> + <param name="file" value="rowheadless.tsv"/> + <param name="plot_options_selector" value="density"/> + <param name="xscale" value="cartesian"/> + <output name="pdf" file="rowheadless.pdf"/> + <output name="summary" file="summary_5.tsv"/> + </test> + <test expect_num_outputs="2"> + <param name="file" value="single_headed_col.tsv"/> + <param name="plot_options_selector" value="density"/> + <param name="xscale" value="log10"/> + <output name="pdf" file="single_headed_col.pdf"/> + <output name="summary" file="summary_6.tsv"/> + </test> + </tests> + <help><![CDATA[ +**What it does** + +The tool generates faceted histograms or density plots using the ggplot2 functions +geom_histogram() or geom_density(), respectively. + +**Inputs** + +Any regular tabular data, provided that the number of columns (tabulations) is unchanged +for any row. + +Except for the first one, any column will be considered as one variable with n_rows +observations. However, non-numeric columns will be filtered and will not be considered +variables. + +If the first column is not numeric, it will be taken as row names (ie observation identifiers), +otherwise, it will be considered as the first numerical variable of the table. + +If the first row is not numerical, it will be considered as a header, ie as describing the +variable names. + +If you provide a table without header, variable names will be assigned to each column +following the R default rule: (V1), V2, ..., Vn + +**Parameters** + +For Count Histograms, both x- and y-axis can have linear (cartesian), log2 or log10 scales. + +For Density Plots, only x-axis can be customized with linear (cartesian), log2, or log10 +scales + +**Outputs** + +The ez_histograms Galaxy tool returns + +- A pdf file with plots faceted on three columns +- A tsv file with statistics summary of the variables generated by the R package vtables + + ]]></help> + <citations> + <citation type="bibtex"> +@BOOK{Wickham2016-ic, + title = "Ggplot2: Elegant graphics for data analysis", + author = "Wickham, Hadley", + publisher = "Springer International Publishing", + series = "Use R!", + edition = 2, + month = jun, + year = 2016, + address = "Cham, Switzerland", + language = "en", + isbn = "9783319242774" +} </citation> + </citations> +</tool>
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/large.tsv Wed Feb 07 19:49:56 2024 +0000 @@ -0,0 +1,1001 @@ +Genes SC_ph2_46_WT_d0 SC_ph2_46_WT_d2 SC_ph2_46_WT_d4 SC_ph2_46_WT_d6 SC_ph2_46_WT_d9 SC_ph2_46_WT_d11 SC_ph2_46_WT_d14 SC_ph2_44_KO_d0 SC_ph2_44_KO_d2 SC_ph2_44_KO_d4 SC_ph2_44_KO_d6 SC_ph2_44_KO_d9 SC_ph2_44_KO_d11 SC_ph2_44_KO_d14 SC_ph2_42_WT_d0 SC_ph2_42_WT_d2 SC_ph2_42_WT_d4 SC_ph2_42_WT_d6 SC_ph2_42_WT_d9 SC_ph2_42_WT_d11 SC_ph2_42_WT_d14 SC_ph2_20_KO_d0 SC_ph2_20_KO_d4 SC_ph2_20_KO_d6 SC_ph2_20_KO_d9 SC_ph2_20_KO_d11 SC_ph2_20_KO_d14 SC_wtc11_62_WT_d0 SC_wtc11_62_WT_d2 SC_wtc11_62_WT_d4 SC_wtc11_62_WT_d6 SC_wtc11_62_WT_d9 SC_wtc11_62_WT_d11 SC_wtc11_62_WT_d14 SC_wtc11_59_WT_d0 SC_wtc11_59_WT_d2 SC_wtc11_59_WT_d4 SC_wtc11_59_WT_d6 SC_wtc11_59_WT_d9 SC_wtc11_59_WT_d11 SC_wtc11_59_WT_d14 SC_wtc11_44_KO_d0 SC_wtc11_44_KO_d2 SC_wtc11_44_KO_d4 SC_wtc11_44_KO_d6 SC_wtc11_44_KO_d9 SC_wtc11_44_KO_d11 SC_wtc11_44_KO_d14 CBI_NG_5925_d0 CBI_NG_5925_d7 CBI_NG_5925_d14 CBI_NG_5925_d21 CBI_NG_5925_d28 CBI_NG_5925_d35 CBI_NG_2266_d0 CBI_NG_2266_d7 CBI_NG_2266_d14 CBI_NG_2266_d21 CBI_NG_2266_d28 CBI_NG_2266_d35 CBI_ph2_44_KO_d0 CBI_ph2_44_KO_d7 CBI_ph2_44_KO_d14 CBI_ph2_44_KO_d21 CBI_ph2_44_KO_d28 CBI_ph2_44_KO_d35 CBI_ph2_25_WT_d0 CBI_ph2_25_WT_d7 CBI_ph2_25_WT_d14 CBI_ph2_25_WT_d21 CBI_ph2_25_WT_d28 CBI_ph2_25_WT_d35 CBII_NG_5925_d7 CBII_NG_5925_d14 CBII_NG_5925_d21 CBII_NG_5925_d28 CBII_NG_5925_d35 CBII_NG_2266_d7 CBII_NG_2266_d14 CBII_NG_2266_d21 CBII_NG_2266_d28 CBII_NG_2266_d35 CBII_ph2_44_KO_d7 CBII_ph2_44_KO_d14 CBII_ph2_44_KO_d21 CBII_ph2_44_KO_d28 CBII_ph2_44_KO_d35 CBII_ph2_25_WT_d7 CBII_ph2_25_WT_d14 CBII_ph2_25_WT_d21 CBII_ph2_25_WT_d28 CBII_ph2_25_WT_d35 CBIII_ph2_25_WT_d14 CBIII_ph2_25_WT_d21 CBIII_ph2_25_WT_d28 CBIII_ph2_25_WT_d35 +ENSG00003 6.64 6.07 6.61 6.31 6.20 5.81 5.35 5.98 6.38 6.83 6.23 6.12 5.88 5.14 6.04 6.34 6.98 6.17 6.01 5.62 5.08 6.81 6.78 6.43 6.24 5.55 5.15 7.09 6.32 6.84 6.52 6.35 5.21 5.02 5.96 6.42 7.04 6.34 6.31 5.58 4.93 6.23 6.32 6.81 6.21 6.27 5.69 4.92 6.12 6.98 7.00 6.90 6.53 6.49 6.08 6.88 7.17 6.98 6.81 6.37 6.11 6.74 6.99 6.74 6.48 5.95 6.15 6.74 6.89 7.04 7.09 6.82 6.79 6.84 6.88 6.58 6.45 6.48 6.86 6.81 6.84 6.49 6.74 6.81 6.81 6.39 6.14 6.89 7.04 6.87 7.24 6.92 6.64 6.58 6.86 6.78 +ENSG00005 1.58 2.78 1.30 0 0 0 0.12 2.06 2.52 0.24 0 0.12 0.22 0 1.27 1.55 0 0.12 0 0.14 0 0.71 0.55 0 0.26 0 0 1.25 0.58 0 0 0 0.10 0 3.46 3.73 0.49 0.11 0.11 0 0 1.64 1.92 0.10 0 0.24 0.15 0.22 1.78 0.61 0.27 0.12 0.38 0.24 3.47 1.92 0.45 0.25 0 0.12 1.45 1.43 0.18 0.21 0.21 0.11 4.38 1.91 0.32 0 0.89 0.72 0.87 0.13 0 0.67 1.38 2.38 0.09 0 0 0.42 1.29 0 0.22 0 0.11 1.20 0.56 0.11 1.10 1.57 0.38 0 0.99 2.03 +ENSG00419 3.26 4.91 4.17 4.26 4.24 3.48 3.56 4.22 4.63 4.61 4.23 4.23 4.37 4.34 4.32 4.71 4.39 4.35 4.25 3.87 3.93 3.49 4.50 4.34 4.20 3.61 3.37 3.87 4.52 4.27 4.48 4.31 3.55 3.43 4.29 4.55 4.47 4.24 4.33 4.08 3.76 4.63 4.46 4.36 4.30 4.34 4.18 3.80 4.50 4.41 4.27 4.35 4.18 4.32 4.87 4.58 4.32 4.16 4.26 4.39 4.51 4.65 4.50 4.33 4.55 4.78 4.37 4.31 4.33 3.98 3.98 4.07 4.29 4.12 4.04 3.94 4.12 4.42 4.29 4.05 4.00 4.57 4.37 4.37 4.21 4.81 4.67 4.37 4.48 3.89 4.09 3.86 4.29 4.05 3.89 3.87 +ENSG00457 2.13 2.86 2.85 3.36 3.50 3.96 4.05 2.86 2.87 3.22 3.30 2.99 3.18 3.17 3.10 2.78 3.03 3.23 3.39 3.48 3.65 1.78 2.95 3.30 3.33 3.66 3.74 2.06 2.62 2.85 3.19 3.34 3.74 3.92 2.46 2.77 3.13 3.15 3.27 3.87 3.73 2.37 2.81 3.14 3.12 3.48 3.54 3.63 2.60 3.21 3.68 4.01 3.80 3.60 2.36 3.14 3.43 3.50 3.46 2.89 2.75 3.05 3.75 3.78 3.42 3.36 2.44 3.21 3.82 3.97 3.80 3.44 3.12 3.45 3.91 3.68 3.31 2.67 3.28 3.28 2.91 2.72 3.28 3.56 3.51 3.25 3.18 3.23 3.59 3.86 3.89 3.51 3.65 3.80 3.65 3.72 +ENSG00460 4.05 4.74 4.67 4.81 4.80 3.23 2.75 4.34 4.53 4.76 4.38 3.64 3.14 2.49 4.65 4.55 4.86 4.67 3.71 2.42 2.44 4.13 4.90 4.72 4.45 2.90 2.35 4.46 4.58 4.88 4.75 4.32 2.38 2.54 4.15 4.27 4.32 4.64 4.19 2.41 1.99 4.52 4.11 4.39 4.22 4.24 2.76 1.92 3.60 4.19 3.94 3.37 2.55 2.10 3.74 3.96 4.36 3.97 3.10 2.07 4.26 4.11 4.35 3.90 2.59 2.68 3.95 4.24 3.94 3.38 2.99 1.79 4.40 4.14 3.18 3.21 2.55 3.79 4.22 3.68 2.53 2.16 4.47 4.42 4.28 2.58 2.42 4.49 4.40 3.60 3.66 2.83 3.90 3.66 3.54 3.05 +ENSG00938 0.03 0.48 0.07 0.03 0 0 0 0.66 0.18 0.07 0 0.05 0.10 0 0.78 0.22 0 0 0 0 0.07 0.07 0.18 0 0 0 0 0.21 0.32 0 0 0 0 0 0.43 0.48 0.14 0 0 0.06 0 0.12 0.20 0.09 0 0.05 0 0 1.40 0.37 0.40 0.30 0.44 0.63 0.56 0.17 0.11 0.05 0 0.05 0.28 0.32 0.31 0.09 0.14 0.05 0.54 0.41 0.53 0.29 0 0.41 0.59 0.27 0.28 0.49 0.62 0.06 0.15 0.22 0.09 0.15 0.51 0.24 0.41 0.05 0.19 0.16 0.37 0.15 0.05 0 0.26 0.45 0 0.11 +ENSG00971 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.01 0 0 0 0 0 0 0 0 0 0 0.01 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.01 0.06 0.08 0 0 0.01 0.01 0.01 0.01 0 0 0.04 0.02 0 0.02 0 0 0.08 0.07 0.06 0.02 0 0.02 0.08 0.05 0.08 0 0 0.01 0.02 0.01 0 0.01 0 0 0 0 0.03 0.04 0.06 0.04 0.05 0.06 0.11 0.03 +ENSG01036 7.04 6.97 6.88 5.89 5.93 5.31 5.04 6.63 6.89 6.56 6.01 6.18 5.90 5.67 6.81 6.99 6.53 5.92 5.96 5.75 5.60 6.93 6.68 5.80 5.82 5.21 5.18 7.43 6.89 6.06 5.76 5.99 5.36 5.33 6.56 7.10 6.39 6.13 6.23 5.88 5.77 6.92 6.96 6.24 5.99 6.20 5.83 5.74 6.72 6.48 6.46 6.71 6.33 6.02 6.20 6.54 6.16 6.10 5.89 5.29 6.75 6.23 6.43 6.53 6.12 5.91 6.51 6.19 6.23 6.68 6.54 6.40 6.05 6.33 6.55 6.39 6.30 6.28 6.02 6.17 6.09 5.35 6.12 6.27 6.49 6.21 6.09 6.28 6.19 6.46 6.73 6.46 6.16 6.22 6.29 6.35 +ENSG01084 3.95 4.44 4.29 4.51 4.57 4.04 4.05 4.57 4.45 4.37 4.48 4.63 4.30 4.38 4.52 4.63 4.44 4.65 4.63 4.40 4.35 3.73 4.41 4.66 4.57 4.17 3.94 4.14 4.25 4.29 4.57 4.46 3.86 4.08 4.31 4.41 4.48 4.64 4.73 4.28 3.92 4.86 4.19 4.22 4.42 4.58 4.26 3.87 4.81 4.63 4.70 4.49 3.90 3.98 5.28 4.77 4.79 4.56 4.30 4.04 5.23 4.57 4.77 4.89 4.11 4.08 5.10 4.30 4.50 4.45 4.01 3.97 4.58 4.39 4.26 3.97 3.87 4.47 4.55 4.55 4.50 4.09 4.38 4.77 4.83 4.29 4.19 4.46 4.56 4.14 4.27 4.08 4.35 4.22 3.92 4.05 +ENSG01167 4.41 5.29 5.40 5.75 5.91 6.11 5.98 5.32 4.97 5.43 5.81 5.90 6.35 6.11 4.93 4.83 5.61 5.87 6.03 6.33 6.18 4.60 5.64 5.66 5.84 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7.45 7.18 7.51 7.28 7.29 7.57 7.42 7.52 7.19 7.07 7.89 7.40 7.57 7.36 7.59 7.20 7.01 5.82 7.53 7.00 7.33 7.13 7.39 6.44 7.50 7.46 7.44 7.22 7.22 7.27 7.67 7.03 7.33 7.66 7.51 7.17 7.08 7.54 7.54 7.51 7.43 7.32 7.35 7.50 7.26 7.31 7.32 6.97 7.39 7.09 6.86 6.82 7.45 7.58 7.28 7.47 6.97 6.84 7.13 7.13 6.77 6.94 7.11 7.29 7.17 7.54 7.25 7.02 7.37 7.50 7.36 7.44 7.30 6.98 7.53 7.20 7.14 6.86 6.99 7.16 7.24 6.64 7.23 7.02 7.39 7.46 7.19 7.10 7.24 7.12 7.45 7.13 +ENSG07129 0 0.19 0.25 0.38 0.23 0.08 0.09 0 0.31 0.18 0 0 0 0 0.23 0.30 0.26 0.26 0 0 0 0 0.15 0.16 0.10 0.21 0.17 0.06 0 0.09 0 0 0 0 0.06 0 0 0 0 0.10 0.28 0.37 0 0 0 0 0.11 0 0 1.81 1.53 0.41 0.79 1.72 0.43 0.35 1.88 1.10 0.91 0.56 0.08 0.88 3.34 1.78 1.12 1.09 0.08 0.69 1.40 1.85 1.03 1.55 2.93 1.36 0.79 1.23 2.75 0.33 2.13 0.66 1.05 0.59 1.13 2.76 2.17 0.98 0.50 1.03 1.36 1.87 0.69 1.55 2.16 2.16 1.27 1.08 +ENSG07168 4.30 5.94 5.90 6.45 6.57 7.38 7.69 5.38 6.03 6.33 6.51 6.57 7.03 7.49 5.71 5.90 6.21 6.46 6.79 7.47 7.69 4.13 6.04 6.39 6.53 7.36 7.42 4.82 5.96 6.23 6.47 6.67 7.33 7.51 5.58 6.05 6.29 6.47 6.69 7.47 7.59 5.90 5.91 6.20 6.51 6.61 7.22 7.51 5.59 6.48 6.74 7.19 6.91 7.03 5.59 5.95 6.61 6.67 6.71 6.52 5.62 5.84 6.82 6.92 6.60 6.44 5.67 5.93 6.54 6.99 6.93 6.74 6.35 6.54 6.99 6.98 6.70 5.65 6.46 6.64 6.64 6.36 5.93 6.67 6.62 6.51 6.45 6.11 6.67 6.83 7.02 6.70 6.45 6.76 6.91 6.79 +ENSG07171 1.56 0.80 0.83 1.14 1.09 0.21 0.27 1.59 1.41 1.58 1.40 1.52 1.96 1.22 1.78 0.85 0.98 1.06 1.40 2.36 1.46 0.88 0.75 1.17 1.12 0.51 0.47 1.18 0.11 0.40 0.70 1.12 0.34 0.58 1.23 0.28 0.39 0.43 0.53 0.76 0.98 1.01 0.19 0.54 0.67 0.73 1.38 0.87 1.63 4.29 3.78 1.83 1.86 2.06 0.80 0.57 6.27 3.24 1.89 1.52 1.39 1.92 7.18 5.17 2.84 1.76 1.42 2.83 6.25 2.98 1.73 1.79 5.49 4.37 1.76 1.36 1.40 0.74 5.69 3.58 2.13 1.11 1.92 7.41 4.83 1.89 1.61 4.13 5.97 2.45 0.96 1.20 6.13 2.04 1.25 0.92 +ENSG07174 0.18 2.70 0.76 0.63 0.72 0.55 0.39 0.12 3.31 1.24 0.66 0.57 1.04 0.31 0.11 2.68 0.37 0.48 0.54 1.04 0.25 0.11 0.91 0.54 0.67 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6.85 6.85 6.74 6.60 6.74 6.59 6.96 6.67 6.49 6.25 6.66 6.95 6.61 6.44 6.18 6.43 6.41 6.42 6.02 5.89 +ENSG07264 3.08 2.86 2.17 0.76 0.76 0 0.63 4.68 3.35 2.23 2.36 1.79 0.79 1.01 4.99 3.36 1.85 1.04 1.14 0.05 0.76 3.22 2.21 1.34 0.74 0.16 0.98 3.77 2.29 1.57 0.86 0.58 0.11 0.57 4.51 2.62 1.41 1.25 0.68 0.49 0.76 3.85 3.36 2.17 2.24 1.10 0.80 0.69 4.66 3.39 2.12 1.15 1.37 1.57 4.90 4.57 3.08 2.69 2.15 1.77 3.91 4.30 3.11 2.71 3.07 2.26 4.82 4.04 1.53 1.55 1.52 2.68 3.04 1.60 0.84 1.78 2.21 4.72 3.61 2.80 3.12 2.13 4.16 2.98 2.57 2.45 2.00 3.91 0.92 1.00 1.34 1.56 0.92 1.00 1.25 1.66 +ENSG07306 0.28 0.19 0.23 0.21 0 0 0.13 0.18 0.36 0.31 0.05 0.07 0 0 0 0 0.07 0.43 0.07 0.08 0 0.04 0.06 0 0 0 0 0.04 0 0.13 0 0.12 0 0 0.53 0 0 0.30 0 0 0 0.05 0.06 0.17 0 0 0.16 0 0.21 0.63 0 0 0 0 0.23 0.27 0 0 0 0 0.18 0.65 0 0 0 0 0 0.15 0 0 0 0 0.30 0.07 0 0 0 0.35 0.24 0 0 0 0.32 0 0 0 0 0.44 0 0 0 0 0.05 0 0 0 +ENSG07312 0.74 0.18 0.28 0 0.21 0 0 1.42 0.18 0.06 0.07 0 0.37 0.91 1.60 0.46 0 0.08 0 0.44 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2.76 2.24 1.61 2.12 2.27 1.07 1.35 2.81 2.97 2.40 3.64 3.72 3.62 2.27 3.12 2.37 2.76 3.01 4.09 2.58 3.48 1.90 2.53 2.12 2.19 2.65 3.29 2.34 3.17 3.24 3.73 2.63 2.96 3.39 3.77 3.52 3.31 2.84 3.04 3.12 3.81 3.44 2.26 2.60 2.34 2.57 3.18 2.38 2.89 3.44 3.70 2.30 2.75 3.13 3.39 +ENSG36828 0.05 0 0 0 0 0 0 0.16 0 0 0 0 0 0 0.40 0.04 0 0 0 0 0 0.11 0.02 0 0 0 0 0.10 0 0 0.01 0 0 0 0.22 0.03 0 0 0 0 0 0.06 0.03 0 0 0 0 0 0.30 0 0.19 0.09 0.10 0 0.01 0.01 1.69 0.41 0.04 0 0.11 0 0.11 0.18 0.10 0 0.19 0 0.63 0.43 0.33 0.07 0 0.23 0.08 0.21 0.02 0 0.68 0.19 0.04 0 0 0.11 0.01 0 0 0 0.51 0.27 0.43 0.06 0.71 0.15 0.39 0.03 +ENSG37042 4.88 4.90 4.69 4.69 4.89 5.77 5.60 5.20 3.96 4.16 4.65 4.78 5.29 6.07 4.93 3.88 3.71 4.45 4.85 5.69 6.38 4.62 4.02 4.24 4.82 5.91 5.83 4.72 4.74 4.27 4.51 5.05 6.05 6.24 4.51 3.85 3.89 4.62 4.63 5.77 6.32 3.77 4.21 4.15 4.88 4.83 5.77 6.26 4.80 4.51 4.60 5.21 5.37 6.19 4.09 4.42 4.28 4.40 4.76 5.41 4.59 4.52 4.63 4.88 5.66 5.67 4.50 4.79 4.50 5.33 5.15 5.89 4.48 4.69 4.84 5.35 5.84 5.05 4.35 4.66 5.32 5.57 4.83 4.48 4.09 5.62 5.68 4.65 4.52 4.95 4.80 5.49 4.55 4.92 4.99 5.28 +ENSG37241 4.86 5.88 6.11 6.00 6.06 5.71 5.68 5.92 6.37 6.14 5.74 5.83 6.04 5.71 5.88 6.40 6.32 5.81 5.95 5.92 5.63 4.52 6.33 5.61 5.70 5.35 5.60 5.15 6.12 6.10 5.90 5.97 5.33 5.33 6.03 6.23 6.15 5.85 6.15 5.84 5.67 6.49 6.41 6.27 5.79 5.85 5.98 5.79 6.29 6.18 6.38 6.28 6.18 6.22 6.11 5.96 6.18 6.22 6.23 6.26 5.95 5.71 5.86 5.98 5.84 6.32 6.15 5.96 6.15 6.21 6.20 6.06 6.08 6.33 6.17 6.22 6.31 5.76 6.16 6.12 6.19 6.08 5.60 5.83 6.22 6.15 6.40 5.78 6.30 6.24 6.13 6.05 6.24 6.07 6.05 5.93 +ENSG37280 2.68 3.06 3.53 3.93 3.48 0.34 0.43 3.34 3.19 3.48 3.50 3.13 1.52 1.44 3.26 3.17 3.53 3.97 3.27 1.24 1.87 2.37 3.51 3.91 3.58 0.61 0.78 2.93 2.91 3.98 4.46 3.93 0.92 1.02 3.20 2.63 3.58 4.20 3.66 1.47 1.64 2.86 3.33 3.61 3.98 3.75 1.81 1.52 3.21 3.26 3.23 2.53 2.22 1.55 2.57 2.24 3.47 3.70 3.12 1.98 1.99 2.92 3.21 3.28 2.02 1.71 2.55 3.22 2.55 1.53 1.39 0.96 3.25 3.11 2.43 2.29 2.46 3.00 3.62 3.70 2.65 1.95 3.28 3.51 3.17 1.32 1.43 3.40 2.20 1.72 0.99 0.80 2.30 1.39 1.35 0.96 +ENSG37474 6.11 6.73 6.60 6.43 6.36 6.03 5.72 6.63 6.62 6.65 5.90 5.72 5.80 6.02 6.86 6.66 6.45 6.09 5.91 5.66 5.85 5.83 6.55 6.17 6.09 5.82 5.45 6.42 6.52 6.60 6.18 6.04 5.48 5.41 6.63 6.50 6.46 6.08 6.02 5.73 5.41 7.36 6.41 6.51 5.97 6.04 5.80 5.50 6.85 6.72 5.87 5.90 5.25 5.42 7.37 6.81 6.30 5.81 5.22 5.25 6.97 6.70 6.00 6.01 5.83 6.02 6.95 6.35 5.98 5.92 5.32 5.19 6.63 6.09 5.84 5.69 5.54 6.59 6.21 5.66 5.33 5.79 6.36 6.05 5.83 5.95 5.90 6.40 6.25 5.90 5.70 5.45 6.10 5.88 5.55 5.52 +ENSG37637 2.89 4.24 4.39 4.50 4.64 5.08 5.39 3.68 4.43 4.45 4.67 4.82 4.72 4.98 3.83 4.48 4.59 4.72 5.04 4.82 5.12 2.61 4.31 4.28 4.43 4.85 5.19 3.23 4.48 4.60 4.58 4.71 5.08 5.28 3.70 4.49 4.71 4.72 4.86 5.16 5.25 4.08 4.39 4.55 4.95 4.84 4.91 5.08 3.87 4.57 4.71 5.08 4.83 4.87 3.62 4.30 4.53 4.72 4.65 4.63 3.74 4.26 4.93 4.99 4.65 4.93 3.83 4.30 4.69 5.12 4.75 4.67 4.39 4.74 4.94 4.86 4.56 4.03 4.50 4.62 4.51 4.56 4.32 4.75 4.83 4.76 4.90 4.48 4.69 4.94 4.93 4.78 4.67 4.78 4.84 4.82 +ENSG37749 3.75 4.55 4.38 4.55 4.72 5.06 5.63 4.11 4.61 4.66 4.50 4.14 4.29 4.51 4.10 4.54 4.73 4.53 4.37 4.71 4.84 4.17 4.75 4.70 4.65 4.96 5.23 4.63 4.63 4.90 4.84 4.88 4.81 5.11 4.07 4.64 4.74 4.72 4.82 4.93 4.87 4.45 4.54 4.75 4.40 4.71 4.54 4.78 4.04 4.79 5.14 5.24 5.22 4.99 4.17 4.33 4.90 4.89 4.83 4.17 4.25 4.51 5.09 5.23 4.86 4.89 4.08 4.42 5.10 5.18 5.35 4.89 4.68 4.95 5.21 5.19 4.71 4.01 4.84 4.81 4.73 4.42 4.52 5.07 5.26 5.01 4.87 4.77 4.99 4.99 5.62 5.04 5.01 4.89 5.53 5.28 +ENSG37757 4.41 4.98 5.11 5.31 5.52 5.35 5.31 4.81 4.32 4.51 4.98 4.93 4.60 4.73 4.74 4.53 4.68 5.20 4.97 4.88 5.13 4.22 4.82 4.98 5.24 5.33 5.34 4.49 4.69 4.55 4.68 4.85 4.97 5.31 4.94 4.10 3.71 4.79 4.60 4.76 4.74 5.25 4.08 4.12 4.53 4.89 4.82 5.08 4.32 4.39 5.09 5.44 5.51 5.31 3.96 3.75 4.75 5.08 4.96 4.83 4.55 4.21 5.06 5.20 5.00 5.22 4.21 4.22 5.21 5.41 5.66 5.58 4.70 5.34 5.68 5.78 5.67 4.06 4.99 5.40 5.09 5.00 4.31 5.10 5.19 4.93 5.16 4.52 5.09 5.44 5.57 5.81 4.97 5.14 5.45 5.82 +ENSG37897 4.64 5.67 6.02 5.69 5.03 3.05 3.13 5.02 5.77 5.54 4.63 3.85 2.70 3.05 5.05 5.91 5.70 4.86 4.15 2.56 3.13 4.71 5.78 5.11 4.56 2.82 2.87 5.00 5.56 5.75 5.21 4.72 2.73 2.94 5.05 5.54 5.61 4.84 4.61 2.90 2.86 5.65 5.50 5.73 4.49 4.62 2.98 2.85 5.35 5.45 4.76 4.26 4.26 4.22 5.33 5.17 5.21 4.74 4.25 3.44 5.70 5.55 4.78 4.56 4.23 4.48 5.61 5.22 4.37 4.22 3.96 3.60 5.52 4.45 4.02 3.86 4.18 5.03 4.84 4.61 3.97 4.48 5.25 4.60 4.73 4.26 4.18 5.33 4.68 4.31 4.03 3.60 4.71 4.34 3.93 3.67 +ENSG37965 0 0.26 5.58 4.70 5.70 6.61 7.92 0 0.05 1.47 1.25 1.66 1.30 0.90 0 0.13 7.09 5.37 2.27 5.93 7.24 0 5.89 5.31 5.89 6.90 8.16 0 0.85 7.01 6.35 7.39 9.49 10.04 0 0 5.54 2.77 3.88 5.62 6.36 2.94 0 3.99 1.02 2.78 1.68 3.60 0 0 0.33 1.68 1.91 1.69 0 0 0 1.52 0.52 0.47 0 0 0 0 0 0 0.06 0 0 0.07 0.19 0.17 0 0.43 2.36 2.95 3.72 0 0 0.65 0.13 0 0 0 0 0 0 0 0 0.07 0.72 0.77 0 0 0.97 0.15 +ENSG38002 3.14 3.14 2.86 3.04 3.15 2.74 2.15 3.16 3.21 3.82 3.37 3.02 2.89 2.01 3.95 3.14 3.16 3.39 3.17 3.00 2.64 3.58 2.72 3.37 3.16 2.24 2.29 3.72 2.98 3.07 3.65 3.60 2.88 2.40 3.44 3.19 3.73 3.60 3.59 3.02 2.39 3.10 3.41 3.74 3.29 3.36 3.14 2.30 3.37 3.71 3.93 3.89 3.85 3.73 3.65 4.23 4.37 4.43 4.32 3.61 3.38 3.45 3.97 4.04 3.90 4.18 2.95 3.49 3.66 4.05 4.70 4.72 3.65 3.16 3.93 3.95 4.08 3.81 4.12 4.33 4.22 4.01 3.52 3.44 3.79 3.53 3.98 3.39 3.32 3.89 4.80 4.90 3.67 3.80 4.30 4.78 +ENSG38210 3.45 4.89 4.34 4.90 4.76 2.67 2.40 5.11 5.08 4.83 4.58 4.35 3.53 2.83 5.01 5.09 4.75 4.74 4.25 2.78 2.78 3.17 4.69 4.81 4.43 2.72 2.56 3.80 5.12 4.80 5.00 4.82 2.23 2.68 4.64 5.06 4.94 4.98 4.99 2.92 2.99 4.89 5.04 4.84 4.66 4.91 3.34 2.55 5.00 5.08 4.89 4.37 4.12 3.90 4.34 5.78 4.88 4.58 4.34 3.65 4.69 4.87 4.62 4.66 4.05 4.00 5.05 4.75 4.42 4.45 4.26 4.10 4.76 4.63 4.22 4.30 4.21 4.57 4.44 4.25 3.93 3.83 4.73 4.48 4.23 3.73 3.91 4.80 4.73 4.34 4.34 3.92 4.59 4.57 4.12 3.95 +ENSG38219 4.22 4.18 3.84 4.05 4.29 5.07 5.23 4.50 4.41 4.52 4.44 4.68 5.14 5.50 4.65 4.32 4.19 4.42 4.66 5.37 5.67 4.10 4.08 4.10 4.31 4.94 5.03 4.54 4.06 4.08 4.09 4.42 4.89 5.23 4.43 4.41 4.22 4.53 4.64 5.54 5.56 4.60 4.35 4.44 4.67 4.69 5.36 5.44 4.89 4.80 5.08 5.32 5.32 5.23 5.08 4.85 4.75 4.81 4.92 4.91 4.86 4.52 4.97 5.33 5.34 5.52 4.71 4.37 4.95 4.98 4.81 4.74 4.64 4.97 5.25 5.27 4.98 4.14 4.68 4.69 5.09 5.13 4.36 4.92 5.18 5.78 5.64 4.47 5.08 4.90 5.10 4.92 4.83 5.07 5.12 4.85 +ENSG38274 3.86 4.79 5.16 5.78 5.93 4.66 3.69 5.15 4.89 5.42 5.65 6.04 5.87 5.01 5.28 5.03 5.62 5.85 6.20 5.48 4.30 4.10 5.45 5.84 6.00 4.52 3.63 4.42 4.98 5.49 5.86 6.06 4.36 3.91 5.03 4.99 5.42 5.73 6.00 5.11 3.85 4.92 4.54 5.24 5.57 5.97 5.38 4.08 5.07 5.08 6.20 6.28 5.95 5.91 5.23 4.94 5.65 5.81 5.92 5.64 5.04 4.58 5.86 6.26 6.18 5.99 5.02 4.63 5.84 5.23 5.42 5.43 5.00 5.96 5.69 5.71 5.51 4.55 5.55 5.74 5.88 5.67 4.68 5.82 6.18 6.18 6.03 4.76 5.83 5.11 5.41 5.50 5.42 5.13 5.34 5.35 +ENSG38295 0.52 0.01 0.03 0.49 0.29 0.06 0.06 0.31 0.01 0.06 0.21 0 0.04 0.11 0.51 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4.70 4.86 5.16 6.19 6.65 3.90 4.53 4.70 4.69 4.85 6.09 6.69 4.14 4.24 4.71 5.06 5.12 6.25 6.51 4.48 4.21 4.87 4.96 4.91 5.73 6.45 4.56 5.09 5.17 5.42 5.41 5.28 4.38 4.81 4.80 5.16 4.96 5.02 4.95 4.71 4.85 5.27 4.76 4.82 4.58 4.58 4.95 5.41 4.92 4.60 4.97 5.12 5.46 5.63 5.06 4.29 4.72 4.82 4.76 4.71 4.53 4.84 4.93 4.91 4.92 4.57 4.71 5.23 5.31 4.95 4.97 5.41 5.43 5.16 +ENSG38427 8.12 8.05 7.37 6.55 6.65 4.39 4.23 6.41 7.77 7.56 7.01 6.81 5.68 4.34 6.55 8.06 7.67 6.87 6.90 6.18 5.51 7.72 7.69 6.58 6.65 4.34 3.98 7.74 7.93 7.42 6.60 6.76 4.30 3.55 6.06 8.00 7.61 7.13 6.87 5.67 4.56 8.22 8.11 8.03 6.71 6.98 5.66 4.18 6.49 7.36 8.17 7.09 6.68 6.38 7.50 6.24 7.67 7.66 7.49 7.37 7.39 5.81 7.92 8.01 6.62 5.54 7.64 6.02 7.78 6.90 5.82 5.42 7.50 7.86 6.93 6.95 7.18 5.69 7.40 7.03 7.00 7.34 5.68 7.92 7.87 6.49 5.75 6.45 7.77 7.18 6.35 6.00 7.73 7.27 6.21 6.02 +ENSG38532 2.21 3.15 3.57 3.91 4.17 5.00 5.12 3.00 3.28 3.76 3.57 3.41 4.21 4.61 3.14 3.24 3.53 3.44 3.62 4.79 4.86 2.22 3.51 3.78 4.02 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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/summary_1.tsv Wed Feb 07 19:49:56 2024 +0000 @@ -0,0 +1,7 @@ +Variable N Mean Std. Dev. Min Pctl. 25 Median Pctl. 75 Max +BaseMean 990 1091.5132 2625.4763 0 31.199603 249.39264 1054.0101 33915.214 +log2FC 849 -0.38999858 1.9953097 -5.2835189 -2.0088992 -0.86544745 1.2737699 5.6079286 +StdErr 849 0.30667747 0.1285766 0.089282127 0.1962894 0.28928034 0.39630761 0.56482292 +Wald.Stats 849 -0.95820431 6.3140778 -21.603869 -5.9077253 -4.475739 5.2726083 19.585597 +P.value 848 0.030010804 0.15185376 0.00000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000016518389 0.0000000000036649168 0.000000012325875 0.0000022785953 0.98727107 +P.adj 813 0.00004223522 0.000078050135 0.0000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000034761298 0.000000000255376 0.00000044934286 0.000034873651 0.00028949939
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/summary_2.tsv Wed Feb 07 19:49:56 2024 +0000 @@ -0,0 +1,16 @@ +Variable N Mean Std. Dev. Min Pctl. 25 Median Pctl. 75 Max +GCB_Mg_S2 1000 672.224 1727.7831 0 69 236.5 700 38072 +GCB_Mg_S7 1000 830.225 1848.5916 0 91.5 317 857.25 34261 +GCB_Mg_S12 1000 685.564 1662.1423 0 71 253 686.25 33558 +GCB_S1 1000 450.654 1224.5977 0 38 152 459.5 29464 +GCB_S6 1000 547.793 1344.4334 0 51 194 550 28567 +GCB_S11 1000 481.844 1310.3546 0 40 152.5 462.5 29614 +GW_S5 1000 698.673 1534.1178 0 63.75 237.5 697.75 26119 +GW_S10 1000 573.137 1477.6949 0 49.75 176.5 504 29920 +GW_S15 1000 718.612 1730.7819 0 69 233.5 676 33878 +NS_S4 1000 824.02 1624.4871 0 100 336 914 28284 +NS_S9 1000 704.673 1266.9907 0 93.5 305 796.25 21678 +NS_S14 1000 883.989 1636.9581 0 114.75 366.5 1016 25492 +Starch_S3 1000 905.783 1464.8208 1 135.75 430 1099 22970 +Starch_S8 1000 973.323 1680.7842 0 138.75 426.5 1092.75 24999 +Starch_S13 1000 752.171 1404.0569 0 93 310.5 846.25 22556
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/summary_3.tsv Wed Feb 07 19:49:56 2024 +0000 @@ -0,0 +1,7 @@ +Variable N Mean Std. Dev. Min Pctl. 25 Median Pctl. 75 Max +V2 1000 1286.6999 2744.7392 6.5122425 100.50742 409.92217 1309.8068 33915.214 +V3 1000 -0.4092237 1.9730612 -5.2835189 -2.0884579 -0.946016 1.2600548 5.6079286 +V4 1000 0.30466439 0.1311528 0.089282127 0.19205135 0.28205562 0.40370597 0.56482292 +V5 1000 -0.9419943 6.2085133 -21.603869 -5.7808572 -4.5659907 5.0667272 19.585597 +V6 1000 0.0000018003049 0.000003260254 0.00000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000016518389 0.00000000002981881 0.000000042451763 0.0000019035803 0.000013756861 +V7 1000 0.000042996682 0.00007258655 0.0000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000034761298 0.0000000025022835 0.000001784909 0.000053393931 0.00028949939
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/summary_4.tsv Wed Feb 07 19:49:56 2024 +0000 @@ -0,0 +1,97 @@ +Variable N Mean Std. Dev. Min Pctl. 25 Median Pctl. 75 Max +SC_ph2_46_WT_d0 1000 3.11773 2.1477193 0 1.0975 3.285 4.7525 10.19 +SC_ph2_46_WT_d2 1000 3.63747 2.359001 0 1.525 3.935 5.33 12.17 +SC_ph2_46_WT_d4 1000 3.63669 2.4152548 0 1.2475 3.99 5.4 12.17 +SC_ph2_46_WT_d6 1000 3.66312 2.4765653 0 1.08 4.165 5.61 11.72 +SC_ph2_46_WT_d9 1000 3.73941 2.4700576 0 1.33 4.335 5.64 11.77 +SC_ph2_46_WT_d11 1000 3.61458 2.5333163 0 0.95 4.16 5.59 13.31 +SC_ph2_46_WT_d14 1000 3.64982 2.592493 0 0.715 4.14 5.6525 13.62 +SC_ph2_44_KO_d0 1000 3.76101 2.2973781 0 1.9975 4.065 5.46 11.42 +SC_ph2_44_KO_d2 1000 3.63091 2.39967 0 1.37 3.945 5.35 12.17 +SC_ph2_44_KO_d4 1000 3.74617 2.4163269 0 1.4925 4.105 5.52 12.37 +SC_ph2_44_KO_d6 1000 3.77324 2.3972206 0 1.67 4.245 5.5925 11.55 +SC_ph2_44_KO_d9 1000 3.79138 2.4189072 0 1.675 4.24 5.5925 11.58 +SC_ph2_44_KO_d11 1000 3.77987 2.4282298 0 1.715 4.29 5.58 12.36 +SC_ph2_44_KO_d14 1000 3.80486 2.4590689 0 1.44 4.345 5.63 12.76 +SC_ph2_42_WT_d0 1000 3.79097 2.3332375 0 2.0075 4.13 5.51 10.82 +SC_ph2_42_WT_d2 1000 3.61533 2.3936933 0 1.43 3.945 5.305 12.16 +SC_ph2_42_WT_d4 1000 3.66082 2.4648083 0 1.26 4.015 5.52 12.18 +SC_ph2_42_WT_d6 1000 3.70802 2.4459409 0 1.43 4.2 5.61 11.73 +SC_ph2_42_WT_d9 1000 3.78185 2.4286019 0 1.685 4.25 5.5925 11.73 +SC_ph2_42_WT_d11 1000 3.72851 2.5039993 0 1.2075 4.265 5.6625 12.96 +SC_ph2_42_WT_d14 1000 3.75931 2.5118435 0 1.17 4.255 5.62 13.31 +SC_ph2_20_KO_d0 1000 3.08787 2.117815 0 1.2375 3.22 4.64 9.94 +SC_ph2_20_KO_d4 1000 3.66303 2.4181179 0 1.31 4.08 5.39 12.04 +SC_ph2_20_KO_d6 1000 3.66579 2.4111765 0 1.3075 4.17 5.53 11.45 +SC_ph2_20_KO_d9 1000 3.73288 2.4179454 0 1.42 4.25 5.55 11.64 +SC_ph2_20_KO_d11 1000 3.60288 2.495575 0 0.8875 4.125 5.52 13.3 +SC_ph2_20_KO_d14 1000 3.5964 2.5132892 0 0.86 4.05 5.48 13.62 +SC_wtc11_62_WT_d0 1000 3.40212 2.2730132 0 1.3925 3.665 5.1025 9.86 +SC_wtc11_62_WT_d2 1000 3.63876 2.4205571 0 1.44 4.03 5.355 11.8 +SC_wtc11_62_WT_d4 1000 3.64659 2.4836605 0 1.1 4.035 5.4925 11.5 +SC_wtc11_62_WT_d6 1000 3.71569 2.4669429 0 1.4 4.26 5.6 11.35 +SC_wtc11_62_WT_d9 1000 3.80686 2.4744861 0 1.435 4.345 5.6825 11.63 +SC_wtc11_62_WT_d11 1000 3.59131 2.5337838 0 0.8875 4.05 5.525 13.35 +SC_wtc11_62_WT_d14 1000 3.7034 2.5457967 0 0.98 4.225 5.59 13.3 +SC_wtc11_59_WT_d0 1000 3.71923 2.303389 0 1.77 4.075 5.48 11.05 +SC_wtc11_59_WT_d2 1000 3.61826 2.405514 0 1.3875 3.98 5.355 11.73 +SC_wtc11_59_WT_d4 1000 3.64446 2.4750506 0 1.1675 4.04 5.53 12.04 +SC_wtc11_59_WT_d6 1000 3.73685 2.4738724 0 1.2275 4.285 5.6025 11.58 +SC_wtc11_59_WT_d9 1000 3.79347 2.4629366 0 1.425 4.325 5.64 11.71 +SC_wtc11_59_WT_d11 1000 3.8024 2.4913136 0 1.2275 4.38 5.66 12.97 +SC_wtc11_59_WT_d14 1000 3.74929 2.5130639 0 1.1875 4.195 5.615 13.63 +SC_wtc11_44_KO_d0 1000 3.75231 2.410491 0 1.615 4.09 5.5225 11.68 +SC_wtc11_44_KO_d2 1000 3.56306 2.4033411 0 1.2275 3.855 5.33 11.64 +SC_wtc11_44_KO_d4 1000 3.66319 2.457765 0 1.245 4.06 5.5125 11.92 +SC_wtc11_44_KO_d6 1000 3.73555 2.4341219 0 1.3875 4.215 5.5625 11.19 +SC_wtc11_44_KO_d9 1000 3.80402 2.4530618 0 1.44 4.32 5.6125 11.37 +SC_wtc11_44_KO_d11 1000 3.82832 2.4438198 0 1.635 4.355 5.61 12.4 +SC_wtc11_44_KO_d14 1000 3.77796 2.4686382 0 1.39 4.22 5.6125 13.43 +CBI_NG_5925_d0 1000 3.81391 2.314134 0 2.01 4.115 5.455 11.72 +CBI_NG_5925_d7 1000 3.88046 2.3760604 0 1.8975 4.235 5.605 12.15 +CBI_NG_5925_d14 1000 4.03084 2.3810075 0 2.115 4.485 5.8 12.11 +CBI_NG_5925_d21 1000 4.0982 2.3553707 0 2.2275 4.505 5.8525 12.4 +CBI_NG_5925_d28 1000 4.01713 2.3419343 0 2.15 4.47 5.73 12.81 +CBI_NG_5925_d35 1000 4.0037 2.3726751 0 2.095 4.365 5.7225 13 +CBI_NG_2266_d0 1000 3.66515 2.3917919 0 1.6 3.92 5.4825 12.1 +CBI_NG_2266_d7 1000 3.829 2.3604446 0 2 4.125 5.53 12.73 +CBI_NG_2266_d14 1000 3.99827 2.3516933 0 2.1175 4.42 5.69 12.27 +CBI_NG_2266_d21 1000 4.01182 2.3036996 0 2.3475 4.425 5.6825 12.1 +CBI_NG_2266_d28 1000 3.90413 2.3318045 0 1.94 4.295 5.57 12.27 +CBI_NG_2266_d35 1000 3.84252 2.3786142 0 1.7875 4.235 5.55 12.35 +CBI_ph2_44_KO_d0 1000 3.71693 2.3525121 0 1.7375 3.975 5.44 11.18 +CBI_ph2_44_KO_d7 1000 3.78661 2.289096 0 2.095 4.12 5.45 12.18 +CBI_ph2_44_KO_d14 1000 4.00159 2.3666751 0 2.1375 4.47 5.77 11.65 +CBI_ph2_44_KO_d21 1000 4.07712 2.3450134 0 2.3475 4.57 5.8 11.31 +CBI_ph2_44_KO_d28 1000 3.91843 2.3934397 0 2.0175 4.375 5.67 11.92 +CBI_ph2_44_KO_d35 1000 3.87058 2.415086 0 1.8675 4.3 5.59 11.56 +CBI_ph2_25_WT_d0 1000 3.67504 2.3151791 0 1.7075 3.885 5.3925 11.42 +CBI_ph2_25_WT_d7 1000 3.76218 2.2711381 0 2.0075 4.155 5.4325 12.05 +CBI_ph2_25_WT_d14 1000 3.93884 2.3528151 0 2.065 4.405 5.71 12.34 +CBI_ph2_25_WT_d21 1000 4.09695 2.3071569 0 2.51 4.55 5.7775 12.68 +CBI_ph2_25_WT_d28 1000 3.98384 2.2701825 0 2.2675 4.435 5.64 12.17 +CBI_ph2_25_WT_d35 1000 3.95099 2.2635005 0 2.3775 4.34 5.56 12.27 +CBII_NG_5925_d7 1000 3.83078 2.3576249 0 1.8975 4.195 5.5325 12.12 +CBII_NG_5925_d14 1000 3.98798 2.3425078 0 2.095 4.44 5.75 12.3 +CBII_NG_5925_d21 1000 4.09168 2.2692616 0 2.44 4.54 5.77 12.56 +CBII_NG_5925_d28 1000 4.12182 2.2650885 0 2.5975 4.545 5.7725 12.89 +CBII_NG_5925_d35 1000 4.06331 2.2135581 0 2.59 4.46 5.5725 12.97 +CBII_NG_2266_d7 1000 3.64617 2.2955894 0 1.7825 3.95 5.335 12.34 +CBII_NG_2266_d14 1000 3.92017 2.3435342 0 1.985 4.38 5.65 11.98 +CBII_NG_2266_d21 1000 3.93792 2.2685917 0 2.32 4.325 5.59 11.76 +CBII_NG_2266_d28 1000 3.92191 2.3337922 0 2.08 4.345 5.5825 11.41 +CBII_NG_2266_d35 1000 3.77144 2.3628802 0 1.7825 4.215 5.4625 11.75 +CBII_ph2_44_KO_d7 1000 3.79221 2.3017856 0 1.9175 4.165 5.48 12.27 +CBII_ph2_44_KO_d14 1000 3.94071 2.3415082 0 2.11 4.455 5.6825 11.21 +CBII_ph2_44_KO_d21 1000 3.95096 2.3618465 0 2.145 4.44 5.6925 11.2 +CBII_ph2_44_KO_d28 1000 3.92924 2.447976 0 1.915 4.375 5.71 11.65 +CBII_ph2_44_KO_d35 1000 3.90667 2.4296602 0 1.825 4.35 5.65 11.96 +CBII_ph2_25_WT_d7 1000 3.83587 2.3139054 0 2.0125 4.24 5.55 12.12 +CBII_ph2_25_WT_d14 1000 3.924 2.3734098 0 1.985 4.42 5.6725 12.55 +CBII_ph2_25_WT_d21 1000 4.00121 2.2999763 0 2.3225 4.46 5.68 12.87 +CBII_ph2_25_WT_d28 1000 4.08491 2.3131296 0 2.405 4.585 5.81 12.44 +CBII_ph2_25_WT_d35 1000 3.99314 2.2755044 0 2.3025 4.415 5.62 12.45 +CBIII_ph2_25_WT_d14 1000 3.84399 2.3219652 0 1.895 4.29 5.5625 12.19 +CBIII_ph2_25_WT_d21 1000 3.94112 2.288597 0 2.1575 4.38 5.61 12.84 +CBIII_ph2_25_WT_d28 1000 4.02923 2.2982489 0 2.35 4.53 5.6825 12.62 +CBIII_ph2_25_WT_d35 1000 3.98047 2.2670942 0 2.3175 4.44 5.6775 12.19
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/summary_5.tsv Wed Feb 07 19:49:56 2024 +0000 @@ -0,0 +1,7 @@ +Variable N Mean Std. Dev. Min Pctl. 25 Median Pctl. 75 Max +V1 1000 1286.6999 2744.7392 6.5122425 100.50742 409.92217 1309.8068 33915.214 +V2 1000 -0.4092237 1.9730612 -5.2835189 -2.0884579 -0.946016 1.2600548 5.6079286 +V3 1000 0.30466439 0.1311528 0.089282127 0.19205135 0.28205562 0.40370597 0.56482292 +V4 1000 -0.9419943 6.2085133 -21.603869 -5.7808572 -4.5659907 5.0667272 19.585597 +V5 1000 0.0000018003049 0.000003260254 0.00000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000016518389 0.00000000002981881 0.000000042451763 0.0000019035803 0.000013756861 +V6 1000 0.000042996682 0.00007258655 0.0000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000034761298 0.0000000025022835 0.000001784909 0.000053393931 0.00028949939