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  • File:Cvglmnetplot.png
    set.seed(1) # [1] 39
    (1,000 × 400 (34 KB)) - 17:56, 11 October 2022
  • File:Polygon.png
    plot(c(1, 9), 1:2, type = "n") polygon(1:9, c(2,1,2,1,NA,2,1,2,1),
    (577 × 577 (30 KB)) - 17:31, 23 April 2024
  • File:Logscale.png
    > plot(c(1, 10, 100), c(1, 10, 100), log="y") > log10(c(1, 10, 100))
    (480 × 480 (4 KB)) - 13:58, 1 May 2020
  • File:Jitterbox.png
    assy <- LETTERS[1:nc] set.seed(1)
    (1,020 × 906 (50 KB)) - 22:53, 8 February 2024
  • File:Reorder.dendrogram.png
    par(mfrow=c(3, 1)) plot(dd, main = "random dendrogram 'dd'") # not the same as reorder(dd, 1:20)
    (814 × 600 (10 KB)) - 12:15, 8 January 2023
  • File:ViridisDefault.png
    1:n, 1, as.matrix(1:n),
    (600 × 200 (2 KB)) - 10:31, 30 August 2022
  • File:Twopalette.svg
    par(mfrow=c(1,2), mar = c(5,2,2,1)) plot(1:8, col=brewer_pal(palette = "Blues")(8), pch=20, cex=4)
    (468 × 468 (43 KB)) - 16:09, 12 April 2019
  • File:Methybetavsm.png
    mydf = data.frame(beta=seq(0,1,length=100), m=log2(seq(0,1,len=100)/(1-seq(0,1,len=100))))
    (480 × 480 (3 KB)) - 10:21, 30 July 2015
  • File:Scatterhist.svg
    zones=matrix(c(2,0,1,3), ncol=2, byrow=TRUE) layout(zones, widths=c(4/5,1/5), heights=c(1/5,4/5))
    (563 × 563 (70 KB)) - 10:22, 16 February 2024
  • File:Rpalette.png
    # [1] "black" "#DF536B" "#61D04F" "#2297E6" "#28E2E5" "#CD0BBC" "#F5C710" pal_matrix <- matrix(seq_along(pal), nr=1)
    (534 × 615 (28 KB)) - 11:08, 10 May 2023
  • File:Rainbow default.png
    sliderInput("s_value", "Saturation (s):", min = 0, max = 1, value = 1, step = 0.01), sliderInput("v_value", "Value (v):", min = 0, max = 1, value = 1, step = 0.01)
    (2,044 × 1,182 (426 KB)) - 08:52, 12 March 2024
  • File:Roc asah.png
    par(mfrow=c(1,2)) par(mfrow=c(1,1))
    (1,024 × 535 (38 KB)) - 15:59, 22 August 2023
  • File:DataOutliers.png
    plot(puree[,1], puree[, 2], xlim=c(0,1), ylim=c(0,1), xlab="X", ylab="Y") abline(0,1, lty=2)
    (1,020 × 1,096 (172 KB)) - 15:27, 7 March 2024
  • File:Dend12.png
    # [1] 8 3 6 5 10 1 9 7 2 4 # Rotate the branches (1,9) & (7,2,4)
    (876 × 448 (11 KB)) - 13:17, 13 August 2023
  • File:Rotateheatmap.png
    rownames(mat) = paste0("R", 1:8) colnames(mat) = paste0("C", 1:10)
    (1,314 × 448 (52 KB)) - 14:44, 13 August 2023
  • File:Geomerrorbarh.png
    trt = factor(c("Treatment 1", "Treatment 2", "Treatment 3", "Treatment 4", "Treatment 5")), # treatment resp = c(1, 5, 3, 4, 2), # response
    (516 × 400 (17 KB)) - 20:38, 15 October 2023
  • File:SnrVScor.png
    tibble(snr = seq(1,40)) %>% mutate(cor=sqrt(snr)/sqrt(snr+1)) %>%
    (483 × 443 (20 KB)) - 14:15, 18 March 2022
  • File:ComplexHeatmap2.png
    set.seed(1) colnames(mat) <- 1:ns
    (800 × 600 (43 KB)) - 21:37, 7 January 2023
  • File:ScaleFillViridisDiscrete.png
    x <- LETTERS[1:20] y <- paste0("var", seq(1,20))
    (600 × 471 (22 KB)) - 10:08, 30 August 2022
  • File:GseaTable2.png
    fgseaRes[order(pval, decreasing = T),][1:10, c('NES', 'pval')] # 1: -0.4050950 1.0000000
    (800 × 600 (81 KB)) - 12:18, 12 January 2023
  • <span class="texhtml mvar" style="font-style:italic;">{{{1}}}</span><noinclude>
    92 bytes (10 words) - 08:42, 7 September 2018
  • ...a season, and a time to every purpose under the heaven. 傳道書 Ecclesiastes 3:1-8 ...ould be quick to listen, slow to speak and slow to become angry.'' - James 1:19
    401 bytes (57 words) - 09:19, 20 October 2018
  • File:Filtered p.png
    # Each curve represents theta (filtering threshold). For example, theta=.1 means 10% of genes are filtered out before we do multiple testing (or BH ad #* if theta=0, 251 hypotheses are rejected at FDR=.1
    (1,020 × 1,096 (171 KB)) - 21:35, 11 March 2024
  • ...ps://ruslanspivak.com/lsbasi-part1/ Let’s Build A Simple Interpreter. Part 1]
    83 bytes (11 words) - 09:28, 4 March 2018
  • File:Filtered R mean.png
    # 10% <---- so theta=0.1 is the optimal; only 10% genes are removed # [1] 270
    (1,020 × 1,096 (68 KB)) - 20:17, 12 March 2024
  • File:RbdBlock.png
    block <- as.factor(rep(1:5, each=6)) random_effect <- rnorm(30, mean = 0, sd = 1)
    (500 × 500 (34 KB)) - 21:51, 14 January 2023
  • File:RbdTreat.png
    block <- as.factor(rep(1:5, each=6)) random_effect <- rnorm(30, mean = 0, sd = 1)
    (500 × 500 (32 KB)) - 21:50, 14 January 2023
  • File:Geom boxplot.png
    ggplot(data.frame(x), aes(1, x)) + geom_boxplot()
    (436 × 536 (14 KB)) - 16:02, 25 November 2019
  • File:Geom bar2.png
    y = c(.02, .11, -.01, -.03, -.03, .02, .1, -.01, -.02, 0.06)) set.seed(1)
    (2,400 × 1,800 (71 KB)) - 14:41, 15 December 2022
  • File:Geom bar1.png
    y = c(.02, .11, -.01, -.03, -.03, .02, .1, -.01, -.02, 0.06)) set.seed(1)
    (2,400 × 1,800 (85 KB)) - 14:39, 15 December 2022
  • File:KMannotation.png
    # [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,10] [,11] # status 1 1 0 1 1 0 1 1 0 1 0
    (732 × 546 (58 KB)) - 22:12, 13 October 2020
  • g1(μx, μy) = ∂g/∂X̄ = 1/X̄, g2(μx, μy) = ∂g/∂Ȳ = -1/Ȳ .../\mu_x)^2 * Var(\bar{X}) + (-1/\mu_y)^2 * Var(\bar{Y}) + 2 * (1/\mu_x) * (-1/\mu_y) * Cov(\bar{X}, \bar{Y}) \\
    2 KB (339 words) - 21:03, 5 August 2023
  • File:IGV fly Anders2013 2.png
    Note that a position may contain more than 1 transcript.
    (1,033 × 854 (102 KB)) - 14:50, 21 May 2015
  • File:Geom bar4.png
    color = "grey", linetype = "dashed", size = 1) +
    (2,400 × 1,800 (51 KB)) - 15:14, 15 December 2022
  • File:ComplexHeatmap1.png
    rownames(mat) = paste0("R", 1:ng) colnames(mat) = paste0("C", 1:n)
    (600 × 450 (29 KB)) - 15:02, 23 August 2022
  • File:DataOutliers2.png
    plot(puree[,1], puree[, 2], xlab="X", ylab="Y") col = c("black", "blue", "red", "cyan", "green"), lty=1, lwd=2)
    (1,020 × 1,096 (133 KB)) - 16:49, 8 March 2024
  • File:KMcurve.png
    # https://www.rdocumentation.org/packages/survival/versions/3.1-12/topics/print.survfit 1 Maintained 45
    (672 × 671 (6 KB)) - 16:15, 30 April 2020
  • File:Svg4.svg
    plot(1:10, main="width=4, height=4")
    (360 × 360 (33 KB)) - 16:58, 17 March 2023
  • File:Palettebarplot.png
    barplot(rep(1, length(pal)), col = pal, space = 0,
    (534 × 615 (9 KB)) - 11:15, 10 May 2023
  • File:R2.png
    # [1] 0.8554949
    (500 × 400 (15 KB)) - 13:46, 21 May 2023
  • File:Venn4.png
    x <- list(First = 1:40, Second = 15:60, Third = sample(25:50, 25),
    (982 × 1,168 (103 KB)) - 14:49, 23 April 2024
  • File:Rerrorbar.svg
    geom_jitter(position = position_jitter(0.2, seed=1), color = "darkgray") + geom_jitter(position = position_jitter(0.2, seed=1), color = "darkgray") +
    (609 × 328 (75 KB)) - 19:37, 24 March 2022
  • File:Rerrorbars.png
    geom_jitter(position = position_jitter(0.2, seed=1), color = "darkgray") + geom_jitter(position = position_jitter(0.2, seed=1), color = "darkgray") +
    (593 × 418 (10 KB)) - 19:39, 24 March 2022
  • File:LogisticFail.svg
    > set.seed(1234); n <- 16; mu=3; x <- c(rnorm(n), rnorm(n, mu)); y <- rep(0:1, each=n)
    (475 × 468 (25 KB)) - 10:08, 26 May 2022
  • File:Fgsea3plots.png
    par(mfrow=c(1,3))
    (1,200 × 400 (68 KB)) - 12:37, 6 January 2023
  • File:Filtered R.png
    # [1] 380 main="BH cutoff = 0.1")
    (1,020 × 1,096 (77 KB)) - 21:41, 11 March 2024
  • File:Foldchangefilter.png
    LFC <- log2(1.5) plot(x, y = 1:28, xlab="log2 intensity", ylab="samples")
    (460 × 460 (22 KB)) - 11:03, 12 October 2022
  • OLlist <- overLapper(setlist[1:3], type="vennsets") OLlist <- overLapper(setlist[1:3], type="vennsets")
    6 KB (842 words) - 11:47, 30 April 2024
  • File:Geomcolviridis.png
    pop_df2 <- tibble(class=rbinom(nrow(pop_df), 1, .5), pop_df)
    (821 × 400 (26 KB)) - 11:50, 30 August 2022
  • ...03-24T20:50:42-0400] [ALPM] installed linux510-virtualbox-guest-modules (6.1.18-18) [2021-03-24T20:50:42-0400] [ALPM] installed virtualbox-guest-utils (6.1.18-2)
    7 KB (932 words) - 16:42, 28 June 2023
  • File:Doubledip.png
    set.seed(1) i1 <- i[1] ; i2 <- i[2]
    (800 × 450 (57 KB)) - 14:19, 22 August 2022
  • = Operating System: From 0 to 1 =
    503 bytes (65 words) - 11:02, 22 March 2018
  • File:Progpreg.png
    x1 <- image_read(u[1])
    (800 × 1,200 (193 KB)) - 10:48, 24 September 2020
  • File:GseaTable.png
    # 1: 5992282_ECM_proteoglycans 1.984081 # 2: 5992219_Regulation_of_cholesterol_biosynthesis_by_SREBP_SREBF_ 1.955961
    (800 × 600 (81 KB)) - 12:01, 12 January 2023
  • ** [https://www.rdocumentation.org/packages/boot/versions/1.3-20/topics/boot.ci boot.ci()] from the 'boot' package provides a short exp ** https://www.rdocumentation.org/packages/boot/versions/1.3-20
    13 KB (1,624 words) - 13:14, 2 November 2023
  • File:Ruspini.png
    mgp= c(1.6,.8,0), mar= .1+c(4,2,2,2))
    (1,000 × 550 (81 KB)) - 10:41, 10 August 2022
  • z = 1; \tif (i == j)\n\t\tz = 0;\n\telse\n\t\tz = 1;
    4 KB (560 words) - 21:50, 10 March 2021
  • s$browse(1) # OR s$browse("RookTest") ...R because the command just a shortcut to open the web page http://127.0.0.1:10215/custom/RookTest.
    3 KB (467 words) - 15:27, 12 August 2019
  • | | |_| | | | (_| | | Version 1.1.0 (2019-01-21) [1] top-level scope at none:0
    1 KB (156 words) - 10:37, 7 April 2021
  • * Power and Sample Size Determination http://www.stat.wisc.edu/~st571-1/10-power-2.pdf#page=12 ...powerandsamplesize.com/Knowledge/derive-z-test-1-sample-1-sided One-sample 1-sided test], [http://www.cyclismo.org/tutorial/R/power.html#calculating-the
    11 KB (1,382 words) - 10:25, 14 November 2023
  • # [1] 28109 # [1] 11
    15 KB (1,636 words) - 10:30, 15 November 2023
  • ...ns(error=function() { traceback(2); if(!interactive()) quit("no", status = 1, runLast = FALSE) }) lapply(1:3, function(i){ browser(); rnorm(i)})
    11 KB (1,621 words) - 13:48, 19 April 2024
  • # Step 1 Find your drive names # Step 1 Create new Physical Volume
    9 KB (1,075 words) - 16:10, 24 February 2023
  • Installed: 1.0.2g-1ubuntu4.5 Candidate: 1.0.2g-1ubuntu4.5
    11 KB (1,370 words) - 09:52, 17 June 2022
  • * http://r-exercises.com/2016/10/30/regular-expressions-part-1/ # [1] "." "\\" "|" "(" ")" "[" "]" "{" "}" "$" "-" "^" "*" "+" "?"
    22 KB (2,994 words) - 09:58, 27 April 2024
  • ...://www.linuxuprising.com/2019/06/fix-missing-gpg-key-apt-repository.html?m=1 Fix Missing GPG Key Apt Repository Errors (NO_PUBKEY)] gpg: Total number processed: 1
    11 KB (1,516 words) - 08:43, 19 August 2022
  • #define ONE 1 printf("The list has %d item%s\n", n , n==1 ? "" : "s");
    10 KB (1,440 words) - 10:41, 10 May 2024
  • filename=$1 ...irectory after extracting mediawiki tar ball]. "tar -xz --strip-components=1 -f mediawiki.tar.gz"
    10 KB (1,361 words) - 09:56, 15 February 2022
  • # Step 1 - Read the design and create eset. colnames(exprs) <- targets[,1]
    7 KB (840 words) - 10:34, 14 May 2023
  • # [1] "Blood Derived Normal" "Solid Tissue Normal" ...D dataset]. [https://www.rdocumentation.org/packages/TCGAbiolinks/versions/1.2.5/topics/TCGAquery_SampleTypes TCGAquery_SampleTypes(barcode, typesample)
    30 KB (2,603 words) - 13:55, 13 April 2023
  • Note 1. It is OK to use the same CVSROOT for multiple modules/projects since each Note 2. The cvs version that I have installed in my ubuntu server is 1.12.13.
    9 KB (1,471 words) - 13:27, 15 October 2019
  • * HTTP Status Code (for example, HTTP/1.1 200 OK) HTTP/1.1 200 OK
    2 KB (213 words) - 18:45, 27 May 2023
  • * Method 1: [https://api.jquery.com/load/ .load()] from '''jquery'''
    2 KB (354 words) - 10:54, 22 March 2022
  • s$d <- s$d/sqrt(max(1, nrow(x) - 1)) plot(pc$x[, 1], pc$x[, 2], col = group, main = "PCA", xlab = "PC1", ylab = "PC2")
    26 KB (3,376 words) - 16:34, 10 February 2024
  • └── [email protected].1 [email protected].1: wanted: {"node":">=0.12"} (current: {"node":"v0.10.25","npm":"1.3.10"})
    11 KB (1,617 words) - 10:45, 12 March 2024
  • * Virtual private servers starting at $5 a month (512MB memory, 1 Core, 20GB SSD, 1TB Transfer) Virtual private servers starting at $5 a month (512MB memory, 1 Core, 20GB SSD, 1TB Transfer)
    5 KB (676 words) - 21:34, 14 December 2023
  • 127.0.0.1:6379> set name mark 127.0.0.1:6379> get name
    2 KB (290 words) - 14:54, 25 October 2020
  • Genome variation profiling by genome tiling array 1,068 Other 1,147
    21 KB (2,620 words) - 15:12, 7 June 2023
  • * [https://youtu.be/TlB_eWDSMt4 Node.js Tutorial for Beginners: Learn Node in 1 Hour | Mosh] # Terminal 1
    8 KB (1,150 words) - 09:24, 29 July 2023
  • <li>[https://academic.oup.com/biostatistics/article/8/1/118/252073?login=false Adjusting batch effects in microarray expression dat <li>[https://www.coursera.org/lecture/statistical-genomics/module-2-overview-1-12-cbqYZ Statistics for Genomic Data Science] (Coursera) and https://github
    26 KB (3,733 words) - 10:56, 24 February 2024
  • ...CC) is a descriptive statistic that describes the extent to which outcomes 1) within each <span style="color: red">cluster</span> are likely to be simil * In the 3 scenario scatterplots on the wikipedia, x-axis represents rater 1 & y-axis represents rater 2. Different points represent different subjects.
    31 KB (4,160 words) - 14:09, 13 May 2024
  • -rw-rw-r-- 1 brb brb 37 Aug 30 20:17 .conky/conky-startup.sh
    2 KB (345 words) - 22:27, 5 February 2024
  • 1. Install the packages
    2 KB (341 words) - 20:05, 15 May 2023
  • | 1 for i in {1..2}; do echo iteration $i; for f in *.jpg; do echo $f; \
    11 KB (1,630 words) - 18:12, 7 January 2024
  • ...'' means that the file system should not be checked by fsck. A value of '''1''' means that the file system should be checked first (like the "/" root fi Disk /dev/sda: 640.1 GB, 640135028736 bytes
    5 KB (775 words) - 12:16, 8 July 2023
  • ...: /usr/bin/java /usr/bin/X11/java /usr/share/java /usr/share/man/man1/java.1.gz java version "1.6.0_38"
    14 KB (1,929 words) - 11:23, 27 November 2021
  • $ smartctl -v | head -1 Controller ID: 1
    20 KB (2,644 words) - 07:49, 30 October 2023
  • 1) Proceed with installation (default) stable installed - rustc 1.48.0 (7eac88abb 2020-11-16)
    2 KB (306 words) - 16:21, 3 January 2021
  • clusterApply(cl, 1:2, get("+"), 3) [https://www.jottr.org/2022/04/22/parallelly-1.31.1/ parallelly 1.31.1: Better at Inferring Number of CPU Cores with Cgroups and Linux Containers]
    36 KB (4,681 words) - 11:52, 6 December 2022
  • ...wers.com/Q/How_do_you_replace_the_belt_tensioner_on_a_92_Saturn_sl1?#slide=1 ...d it for free. Here's a hint to start your car without pressing the break, 1) push in start, 2) let go, 3) push in again and hold for 30 seconds. You ca
    12 KB (1,654 words) - 15:14, 7 January 2024
  • ...0/07/08/r-package-integration-with-modern-reusable-c-code-using-rcpp/ Part 1] if (nx > 1 & ny > 1) stop("Only one parameter can be a vector!");
    34 KB (4,410 words) - 20:45, 22 May 2023
  • [https://t.co/rfKF3ABFJp?amp=1 useR 2019] & [https://youtu.be/YEQ5xFewbdA?t=891 youtube] # [1] ‘3.12’
    25 KB (3,049 words) - 13:45, 17 April 2024
  • ...riant annotation, we will get a bug report message. The main output files (1 vcf and 2 texts files) are generated but the pdf/html files cannot be creat A subset of GSE48215 (about 1/10 of the original FASTQ files) created to run the benchmark.
    19 KB (2,682 words) - 16:41, 20 October 2022
  • ...l/traveler-magazine/photo-contest/2014/entries/gallery/outdoor-scenes-week-1/ National Geographic Travel Photo Contest 2014] works for '''curl''' but no ==> TYPE I ... done. ==> CWD (1) /Drosophila_melanogaster/Ensembl/BDGP6 ... done.
    18 KB (2,498 words) - 12:33, 10 February 2024
  • y ~ x + (1|group) # random intercepts, same slope for groups lme(y ~ 1 + randonm = ~1 | Random) # one-way random model
    46 KB (5,482 words) - 16:33, 10 December 2023
  • brw-rw---- 1 root disk 31, 0 Dec 10 06:00 /dev/mtdblock0 ...and in the terminal: '''sudo dd if=/dev/zero of=/dev/mtdblock0 bs=1M count=1'''
    13 KB (2,211 words) - 20:32, 18 April 2024
  • {| border="1" style="border-collapse:collapse; text-align:center;" | || || 1 || 0 ||
    44 KB (6,015 words) - 17:06, 29 October 2023
  • * I tried to install from the source (v2.2.1) on Ubuntu 14.04. The canonical method ./configure, make & sudo make instal time rvm install ruby-2.1.4
    3 KB (484 words) - 17:11, 24 November 2019
  • x <- 1:100 summary(model2)$r.squared # 1
    51 KB (6,774 words) - 17:54, 6 April 2024
  • static_ip="192.168.1.14/24" static_gw="192.168.1.1"
    21 KB (3,167 words) - 13:51, 17 May 2024
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