# Changes related to "Dahlquist:Protocols"

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This is a list of changes made recently to pages linked from a specified page (or to members of a specified category).
Pages on your watchlist are **bold**.

#### 22 July 2014

19:04 | Dahlquist:Microarray Data Processing in R (4 changes) . . (+482) . . (Page history) [Kam D. Dahlquist (4×)] |

| 19:04 (cur; last) . . (+199) . . Kam D. Dahlquist (Talk | contribs) (→Create a targets file with information about the .gpr files: more explanation of top and bottom of GCAT chips) |

| 19:02 (cur; last) . . (+175) . . Kam D. Dahlquist (Talk | contribs) (→Create a targets file with information about the .gpr files: made wt lowercase and noted downstream case sensitivity) |

| 18:59 (cur; last) . . (+203) . . Kam D. Dahlquist (Talk | contribs) (→Input Files for R: added links to GCAT and Ontario microarray center) |

| 18:51 (cur; last) . . (-95) . . Kam D. Dahlquist (Talk | contribs) (→Input Files for R: don't need to have separate folders for Ontario and GCAT so removed that instruction) |

#### 21 July 2014

19:39 | Dahlquist:Modified ANOVA and p value Corrections for Microarray Data (15 changes) . . (+1,333) . . (Page history) [Katrina Sherbina (3×); Kam D. Dahlquist (12×)] |

| 19:39 (cur; last) . . (-13) . . Katrina Sherbina (Talk | contribs) (→Finding a General Linear Model in MATLAB: Better separated the part of the code corresponding to the warning) |

| 19:38 (cur; last) . . (+234) . . Katrina Sherbina (Talk | contribs) (→Finding a General Linear Model in MATLAB: Documented an error when running the protocol piece by piece rather than all the way through) |

| 18:43 (cur; last) . . (+17) . . Kam D. Dahlquist (Talk | contribs) (→Finding a General Linear Model in MATLAB: Removed a break in a for loop) |

| 18:37 (cur; last) . . (0) . . Kam D. Dahlquist (Talk | contribs) (→Finding a General Linear Model in MATLAB: Put an "end" back into the code box) |

| 18:37 (cur; last) . . (+552) . . Kam D. Dahlquist (Talk | contribs) (→Calculate the F Statistic: note about missing data errors) |

| 18:36 (cur; last) . . (+277) . . Kam D. Dahlquist (Talk | contribs) (→Finding a General Linear Model in MATLAB: Added more description) |

| 18:05 (cur; last) . . (+154) . . Kam D. Dahlquist (Talk | contribs) (→Finding a General Linear Model in MATLAB: Added some description of the code) |

| 18:03 (cur; last) . . (+29) . . Kam D. Dahlquist (Talk | contribs) (→Finding a General Linear Model in MATLAB: Modified in if statement prior to creating the plots) |

| 18:00 (cur; last) . . (-1) . . Kam D. Dahlquist (Talk | contribs) (→Calculate the F Statistic: removed period from equation) |

| 17:40 (cur; last) . . (-2) . . Kam D. Dahlquist (Talk | contribs) (→Finding a General Linear Model in MATLAB: Corrected the calculations that construct the vectors of column indices. Also created the input file name.) |

| 17:28 (cur; last) . . (+9) . . Kam D. Dahlquist (Talk | contribs) (→Calculating the F statistic and p value corrections in MATLAB: Corrected the calculation to create the vectors of column indices) |

| 17:17 (cur; last) . . (+26) . . Kam D. Dahlquist (Talk | contribs) (→Calculating the F statistic and p value corrections in MATLAB: note about case) |

| 17:16 (cur; last) . . (-22) . . Kam D. Dahlquist (Talk | contribs) (→Calculating the F statistic and p value corrections in MATLAB: changed input filename to match output from normalization) |

| 17:10 (cur; last) . . (+87) . . Katrina Sherbina (Talk | contribs) (→Calculating the F statistic and p value corrections in MATLAB: Gave a detailed description of how to specify the input variables filename, sheetname, and strain) |

| 15:36 (cur; last) . . (-15) . . Kam D. Dahlquist (Talk | contribs) (changed most instances of the word "spreadsheet" to "worksheet" to be clear) |

16:16 | Dahlquist:Microarray Data Processing in R (18 changes) . . (+1,048) . . (Page history) [Kam D. Dahlquist (8×); Katrina Sherbina (10×)] |

| 16:16 (cur; last) . . (+173) . . Katrina Sherbina (Talk | contribs) (→Create MA Plots and Box Plots for the GCAT Chips: Added the call browser() after to plot commands to allow the user to pause at the plot before continuing with the rest of the code) |

| 15:33 (cur; last) . . (0) . . Katrina Sherbina (Talk | contribs) (→Create MA Plots and Box Plots for the GCAT Chips: Changed an index in for loop that generates MA plots) |

| 15:32 (cur; last) . . (0) . . Katrina Sherbina (Talk | contribs) (→Create MA Plots and Box Plots for the GCAT Chips: Corrected index in for loop to calculate intensity values after averaging duplicate genes) |

| 15:30 (cur; last) . . (+1) . . Katrina Sherbina (Talk | contribs) (→Create MA Plots and Box Plots for the GCAT Chips: Replaced a piece of hard coding) |

| 15:13 (cur; last) . . (+19) . . Kam D. Dahlquist (Talk | contribs) (→Visualize the Normalized Data: warnings are OK) |

| 15:04 (cur; last) . . (+127) . . Kam D. Dahlquist (Talk | contribs) (→Create MA Plots and Box Plots for the Ontario Chips: warning messages are ok) |

| 15:02 (cur; last) . . (+44) . . Kam D. Dahlquist (Talk | contribs) (→Create MA Plots and Box Plots for the Ontario Chips: warning message OK) |

| 14:57 (cur; last) . . (+1) . . Katrina Sherbina (Talk | contribs) (→Create MA Plots and Box Plots for the GCAT Chips: Indented a line to make it appear as a line of code) |

| 14:53 (cur; last) . . (+144) . . Kam D. Dahlquist (Talk | contribs) (→Create MA Plots and Box Plots for the GCAT Chips: warning message OK) |

| 14:50 (cur; last) . . (0) . . Kam D. Dahlquist (Talk | contribs) (→Create MA Plots and Box Plots for the GCAT Chips: Changed a number to a bullet) |

| 14:49 (cur; last) . . (0) . . Kam D. Dahlquist (Talk | contribs) (→Create MA Plots and Box Plots for the GCAT Chips: Corrected the line of code that averages duplicate spots on the GCAT chips) |

| 14:39 (cur; last) . . (0) . . Katrina Sherbina (Talk | contribs) (→Create MA Plots and Box Plots for the GCAT Chips: Changed rl to r1) |

| 14:38 (cur; last) . . (0) . . Katrina Sherbina (Talk | contribs) (→Create MA Plots and Box Plots for the GCAT Chips: Corrected variable name (lr to rl)) |

| 14:36 (cur; last) . . (+5) . . Katrina Sherbina (Talk | contribs) (→Create MA Plots and Box Plots for the GCAT Chips: Corrected more variable names) |

| 14:35 (cur; last) . . (+5) . . Katrina Sherbina (Talk | contribs) (→Create MA Plots and Box Plots for the GCAT Chips: Corrected the name of a variable) |

| 14:34 (cur; last) . . (+84) . . Kam D. Dahlquist (Talk | contribs) (→Create MA Plots and Box Plots for the GCAT Chips: added that NaN warning OK) |

| 14:33 (cur; last) . . (+152) . . Kam D. Dahlquist (Talk | contribs) (→Between Array Normalization of Only Ontario Chip Data: extra note that this is not for combining GCAT and Ontario data) |

| 14:15 (cur; last) . . (+293) . . Katrina Sherbina (Talk | contribs) (→Input Files for R: Added a description of the microarray chips normalized) |

#### 17 July 2014

N 15:08 | Dahlquist:GRNmap (diff; hist) . . (+22) . . Kam D. Dahlquist (Talk | contribs) (pasted in Dahlquist template) |

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