WHEEL MANAGER DATA ANALYSIS
Contents
1. Click to save changes and close dialog Click to ignore changes and close dialog Using the Light Sensor When the Use Light Sensor radio button is selected a dropdown selector to pick the desired light sensor appears Select the sensor to use as the light dark graph data source Figure 2 12 Light Dark Controls with Use Light Sensor Radio Button Selected LightiDark heel Analysis120071112 104513 wls Manual Schedule f Use Light Sensor Light e au Light Dark Threshold Setting the Light Dark Threshold When using a light sensor as the light dark graph source a level of brightness must be chosen to delineate between dark and light The Light Dark Threshold value is in arbitrary units au Each light sensor in each database has an associated Threshold value The Threshold value is indicated in the light dark graph by a pink horizontal line The Light Dark Threshold can be adjusted by entering a value in the field using the up and down arrow keys to the right of the field or by clicking and dragging the pink indicator line on the light dark graph Customizing the Environmental Sensor Graph The environmental graph displays the light temperature or humidity data from the environmental sensors Figure 2 13 Environmental Sensor Data Environmental Sensors CABocuments and Setti C Linh Light 11353 L RH Adding and Removing Traces from the Graph To add an environmental s2. Report Format Allows the user to select the format of the bin labels in the exported data file o Date Time Column Each bin will be labeled using the date and time of the corresponding bin o Time Column Each bin will be labeled using the time of the corresponding bin in minutes o Bin Number Column Each bin will be labeled using the bin number I nclude Heading If checked a heading will appear in the exported data file This heading includes the date and time that the data was exported the data file name data acquisition start and stop times and the number of hubs and wheels Refer to Figure B 1 I nclude Row Labels If checked each row or bin will be labeled according to the Report Format selected Refer to Figure B 1 If checked each column of data will be labeled with the Hub ID Sensor Type and Sensor ID numbers or names if Use Sensor Names is selected Refer to Figure B 1 I nclude Column Labels o Sensor Type The sensor type is indicated in the Column Label using a numeric value Output Nulls as Zero If checked the export will output zeroes rather than nulls for blank records values Refer to Figure B 3 Wheel Sensors Select the wheel sensors to include in the exported data file Click the to select all of the wheel sensors Environmental Select the environmental sensor data to include in the exported data Sensors file Click the b to select all of the environmental sensors Dis
3. Ctrl Shift Ctrl B Ctrl Shift B ut Toolbar Pan Loom Zoom In X Zoom Out X menu Zooming Out to the Full Extents x zi Zoom In Both Zoom Out Both Zoom In Y Zoom Out Y To zoom out to full extents use any of the following methods Table 3 4 Zooming Out to the Full Extents To Pan Zoom Menu Pan Zoom Zoom Out Full Zoom Using the Center Mouse Wheel Roll the center mouse wheel down towards your hand to zoom in around the cursor Roll the wheel up away to zoom out To zoom in quickly double click near the area of interest to move the cursor then roll the mouse wheel down to zoom in Zoom Using the Set Graph Extents Dialog Set the zoom levels by entering the minimum and maximum axes values in the Set Graph Extents dialog Refer to the Adjusting the X and Y Axis Ranges section of this manual for further information Panning To pan is to move the visible region without affecting the zoom level It is only possible to pan a graph that is shown at less than full extents zoomed in To enter Pan mode and pan with the mouse use any of the following methods Table 3 5 Panning Toolbar Pan Zoom Menu Pan Zoom Pan Control Once in Pan mode indicated by toolbar pan button down click and drag the mouse inside a graph to pan Alternatively use the left right arrow keyboard keys to move the cursor off the edge of the graph Graph will pan in that direction
4. Graph Aen Ph rb etre FERE er 18 Using the Environmental Sensor Graph Cursor nnne 18 ZOOMING in on the Graphs meme heme nee 18 maa MINCE 21 CODE oi 22 Vviewind Tbe ACO Le uA Eher HIT Edu etum 22 Chapter ann nor 24 Viewing the 24 ROTON CO ct 26 ADDOeBDODC A ae DU ons 27 27 ADDOeBDODC B aan net 29 Sample Exported bas side e aa 29 MED ASSOCIATES INC WHEEL MANAGER DATA ANALYSIS V CHAPTER 1 User Interface The Wheel Manager Data Analysis main screen appears when the application is opened The main screen is shown below with all of the components labeled Figure 1 1 Main Screen Labeled Menu Bar Bin Size Slider ES Wheel Analysis Toolbar Cursor Location Display Wheel Sensor Graph Wheel Sensors Tree P Light Dark Settings Light Dark Graph Environmental Sensor Graph Environmental Sensors Tree 128 122200 AM The main screen contains three graphs the Wheel Sensor Graph the Light Dark Graph and the Environmental Sensor Graph Use the Wheel Sensors Tree Light Dark Settings and Environmental Sensors Tree to specify the data that appears on the graphs The subsequent chapters of this manual explain the main screen in much greater detail CHAPTER 2 Getting Started Opening the Data File
5. 112 113 114 115 116 117 118 119 211 212 Mon 11 12 07 10 00 00 o 0 0 0 ol 0 0 0 Mon 11 12 07 10 01 00 0 0 0 0 0 1 0 0 5 Mon 11 12 0 10 02 00 0 11 1 U 45 Mon 11 12 07 10 03 00 3 0 0 0 31 30 Mon 11 12 07 10 04 00 0 14 0 0 0 0 1 24 7 Mon 11 12 07 10 05 00 0 16 0 0 1 1 0 33 27 Man 11 12 07 10 06 00 0 0 0 0 0 0 21 0 Null Values Output as Zeros The sample exported data file shown in Figure B 4 was generated with the Use Sensor Names option enabled Figure B 4 Sample Exported Data File with Use Sensor Names Enabled Date Tue 04 01 08 11 06 39 Database CADocuments and Settings Wheel Managercn71112 104513 wls start Time Mon 11 12 07 10 00 00 End Time Tue 11 13 07 10 00 00 Hubs 2 Wheels 19 Bin Size min 1 Sensor Names 8 Mon 11 12 07 10 00 00 0 Mon 11 12 07 10 01 00 47 15 22 59 g 0 E 0 Mon 11 12 07 10 02 00 0 22 56 0 0 11 Mon 11 12 07 10 03 00 47 59 0 0 0 0 3 Mon 11 12 07 10 04 00 47 82 422 52 0 0 14 0 Mon 11 12 07 10 05 00 22 55 16 Mon 11 12 07 10 06 00 47 45 The sample exported data file shown in Figure B 5 was generated with the Raw Data Only option enabled The message time MsgTime is shown in milliseconds The message type MsgType is indicated using a numeric value A message reading 131 indicates a Sensor Reset and a message reading 134 indicates a Sensor Message The battery voltage Battery is in volts DC Figure B 5 Sample Export
6. Also the scroll bars may be used to pan Click and drag the visible region portion of the scroll bar Or click inside the scroll bar but outside the visible region to move the visible region in the direction of the click CHAPTER 4 Viewing the Actogram The actogram is a useful tool for determining circadian locomotor activity rhythms The actogram plots a wheel s activity versus time Each horizontal line represents one day in single plot mode or two days in double plot mode The actogram can display activity in several graph styles line bar or flat The different graph styles show the activity alpha periods and resting rho phases using different line styles View the actogram for a specific wheel by right clicking on the wheel name displayed on the Wheel Sensor Tree or by highlighting the desired wheel on the Wheel Sensor Tree and selecting Analysis Actogram It will take a few moments for the actogram to be created An example actogram is shown below The actogram can be customized using the controls on the screen A description of each control is included in Table 4 1 Figure 4 1 Example Actogram Actogram for Wheel 13 167 l 12 00 AM 2 00AM 4 DO AM 5 0D AM 8 00 AM 10 00 AM 12 00 PM 2 00PM 4 00PM 6 00PM 8 00PM 10 00PM 12 00 AM Time af Dav Actogram Start Bin Size Graph Style Cursor Action 100 lijlzj2zoo7 10 45 AM 60 5 lo Bar Print Lasso Zoom ct
7. Information Select the database to work with from the Database dropdown selector Start Date Displays the time that the acquisition started for the selected database End Date Displays the time that the acquisition ended for the selected database If the database is still acquiring data or was not closed properly this field will display Running Current Lists the Date Time Sensor and Text for each annotation in the Annotations Table selected database Click a column header to sort by that field Deletes the selected row in the Current Annotations table Use the Wheel Sensor Date and Time dropdown selectors to enter the desired information Next add the desired text to the New Annotation Text field Click Add to add this annotation to the Current Annotations table Click to save changes and close dialog Click to ignore changes and close dialog MED ASSOCIATES INC WHEEL MANAGER DATA ANALYSIS Exporting Data To export data to a Microsoft Excel spreadsheet file a comma delimited or tab delimited file select File Export The screen shown in Figure 2 15 will appear Click on the button in the upper right corner to browse to the desired source data file The screen shown in Figure 2 16 will appear Figure 2 15 Export Data Screen Export Data Source Data File C Documents and Settings Jessica Desktop Wheel nalysis20071112 1045153 wls Wheel Sensors Start Date 11 12 2007 Time 10 45 1
8. Wheel Manager med ASSOCIATES INC Wheel Manager Install the Wheel Manager software Extras Browse the CD MED ASSOCIATES INC WHEEL MANAGER DATA ANALYSIS Begin installing the software by clicking Install Complete the steps to install the software entering the desired User Name and Company as well as the password when prompted Successful installation will be indicated by a green check mark and a red X will indicate an unsuccessful installation Once the software has successfully been installed the screen shown in Figure A 3 will appear Figure A 2 Click Install to Begin Wheel Analysis Install Wizard med JSSOCIA ES ING Welcome to the install wizard for Wheel Analysis The wizard will install Wheel Analysis on your computer To continue click Install Wheel Analysis instrumentation and software for research Cancel Software installation is now complete Click Finish to close this window Figure A 3 Customer Information Screen Wheel Analysis Install Wizard med JSSOCIA ES INE Install Wizard Complete The Install Wizard has successfully installed Wheel Analysis Click Finish to exit the wizard 4 Wheel Analysis instrumentation and software for research 228 MFD ASSOCIA T rc M FFI MA AGER DATA NA VCIC E D ADDUCIAITES IN Mor WHEEL MANAGER DAIA ANALY bolo APPENDIX B Sample Exported Data Files The sample data file shown in Figure B 1 was genera
9. Zoom Lasso Zoom control uses the mouse to draw a rectangular zoom region To turn on Lasso Zoom using any of the following methods Table 3 2 Lasso Zoom Methods Pan Zoom Menu Pan Zoom Lasso Zoom Once in Lasso Zoom mode indicated by lasso toolbar button down e Click and drag to enlarge that area of the graph e Hold down Shift key and click inside graph to zoom out to the previous range Zoom Using the Scroll Bar The scroll bars below and to the right of the wheel graph indicate the current visible range as a subset of the data s full extents The arrow boxes at the scroll bar ends indicate the current range setting The arrows may also be dragged with the mouse to change the visible range zoom level To show less time zoom in drag the left end of the horizontal scroll bar to the right and or the right end of the horizontal scroll bar to the left The visible range bars may be dragged to pan the graph Also a click inside the scroll bar outside the visible range will move the visible range toward the click position Click and hold to move continuously Figure 3 3 Zooming in Using the Scroll Bar I E a T uA Fe Eu HH B EZ 2 B B E B E B B P B ES z ZOOM USING THE SCROLL BAR Zoom Using the Zoom Around Cursor To zoom in or out around the cursor use any of the following methods Table 3 3 Zoom Using the Zoom Around Cursor Keyboard Ctrl
10. in less detail but may appear smoother Six minute bins will yield results to a 0 1 hour resolution One minute bins will yield finer resolution circadian period down to 0 0167 hour resolution Cursor Action Select the function of the cursor on the graph e Pan allows the user to place the cursor on the graph area and by clicking and holding the left mouse button move the graph contents Lasso Zoom allows the user to select a rectangular area of the graph to zoom in on by clicking and holding the left mouse button over the desired graph area Hold down the Shift key and click the left mouse button to undo a lasso zoom Days the number of whole days in the data set Period Hours the calculated circadian period d f degrees of freedom Period Hours bins per hour 1 Qp robustness of Period Hour s calculation p probability that the maximum Qp calculated is a false peak Ap of 0 0596 or less is a significant finding See Note button appears when a warning exists The message will warn of insufficient data A minimum of ten days of data is suggested to achieve statistical significance Export Results Button will save the periodogram analysis results and graph to a text file Print Sends the perodogram toa rite a picture of the periodogram as an enhanced metal enh References Enright J T 1965 The search for rhythmicity in biological time series ourna of Theoretical Biolog
11. name of the wheel trace and the trace color If the text field is blank and the wheel trace color box is black the cursor is currently not associated with any particular trace Below the current graph field the location of the cursors is shown Time is the X axis component and turns or kilometers is the Y axis component of the cursor location To change the units displayed for the Y axis component select Tools Wheel Graph Y Axis Units Double click the left mouse button in the wheel graph to move the cursor to a plot or click a selected wheel name in the wheel sensor tree to move the cursor to it s trace For more information on cursor control refer to the Chapter 3 of this manual Figure 2 9 Cursor Location Section of Main Screen Cursor Location i4 EN M12 12 00 AM Time 15256 000 Turns Combining Data for Wheels with the Same Name Wheels may be listed as unique items or combined together into wheel groups of the same name This allows wheel data for a particular cage to appear contiguous even if multiple physical wheels are used to acquire the data As an example lets assume that a wheel is named in Wheel Manager to match its cage identifier e g B57A3 After acquisition has begun wheel B57A3 goes out of service and is replaced by another wheel This replacement wheel needs to be named in Wheel Manager with the same name as the out of service wheel B57A3 Now in Wheel Analysis select Tools Combine Same Wheel Name
12. value km or turns The Cursor Control toolbar button must be the Cursor depressed Ctrl K Using the Light Dark Graph Cursor The Light Graph has two cursors yellow and pink The vertical yellow time x axis cursor is locked in sync with the wheel sensor and environmental sensor graph time cursors The pink horizontal line cursor indicates the light dark threshold and appears only if the Use Light Sensor radio button is selected Light sensor readings above this line are considered to be daytime for circadian rhythm research The light dark threshold line may be dragged with the mouse or set with the edit box to the left of the light dark graph Figure 3 2 Light Dark Graph with Cursors Using the Environmental Sensor Graph Cursor The Environmental graph has one cursor a yellow time x axis cursor that is locked in sync with the wheel sensor and environmental sensor graph time cursors This cursor may not always be precisely aligned vertically with the cursors in the Wheel Sensor Graph Cursor and the Light Dark Graph Cursor This is due to the fact that data is sampled less frequently from the Environmental Sensor than the Wheel Sensor and consequently there are fewer data points Zooming in on the Graphs To zoom is to change the extents of a graph s axes Zoom In to show less data in finer detail and Zoom Out to show more data with less detail There are several ways to change the zoom level Zoom Using the Lasso
13. 08 00 AM 11 12 08 00 Pe 11 13 08 00 AM 11 13 08 00 PM 11 14 08 00 AM 11 14 08 00 PM sa The Manual Light Dark Scheduler dialog Figure 2 11 provides a way to use the light dark features of the Wheel Analysis software without using an environmental light sensor Refer to Table 2 2 and enter the desired information The schedule is represented in graphical form on the screen Figure 2 11 Manual Light Dark Scheduler Dialog Manual Light Dark Scheduler Database C Documents and Settings TessicalDeskbopyWwhesl Analvsisiz0071112 104513 Start Date End Date Cancel 11 12 07 10 45 13 AM Running 11 14 00 00 11 24 00 00 Lights OM i 11 12 07 08 00 00 AM 11 13 07 08 00 00 AM 11 14 07 08 00 00 AM 11 15 07 08 00 00 AM 11 16 07 08 00 00 AM VTS Aaa 11 12 07 06 00 00 PM 11 13 07 08 00 00 PM 11 14 07 08 00 00 PM 11 15 07 08 00 00 PM 11 16 07 08 00 00 PM VTS ee nsa Delete Rows Lights On Lights Off 12 30 2008 11 35 46 AM ES Lights On Duration Hours Minutes Seconds o o o Table 2 2 Manual Light Dark Schedule Information Lights On Enter the time that the lights will turn on Lights On Duration Enter the duration of time that the lights will stay on AddRow Row Click to add this row to the schedule LI Off Displays the time that the lights will turn off this is a read only field Delete Rows Deletes the selected row s from the schedule
14. 3 AM End Date 11 27 2007 Time 8 19 04 AM Bin Size min 1 Output Options LE P Raw Data only Use Sensor Names Report Format Iw Include Heading Date Time Column v Include Row Labels f Time Column v Include Column Labels f Bin Number Column Output Mulls as Zero Output File C Documents and Settings Jessica Desktop Wheel Analvsiskz0071112 104513 xls m ces Select the desired source data file and click Open The screen shown in Figure 2 17 will appear Figure 2 16 Select the Source Data File Look in E Wheel Mgr A re 5 20080206 _135813 ls My Recent 20080206 141819 wls Documents Desktop My Documents My Computer My Network File name 20080205 135750 wls Places Files of type wheel datafiles le Cancel eee ee Select the desired source data file and click Open The screen shown in Figure 2 17 will appear Figure 2 17 Export Data Screen with Source Data File Selected Export Data Source Data File C Documents and Settings All UsersiDocuments 20080207 153527 wls E Wheel Sensors Start Date 2j 7 2008 Tma 3 35 27 PM A Hub Id Mame End Date 2 7 2008 Time 3 40 21 PM Bin Size min 1 Qutput Options Raw Data only Use Sensor Names Report Format Iv Include Heading f Date Time Column i Include Row Labels tf Time Column MW Include Column Labels 4 Humidity 95 f Bin N
15. Data and only one wheel in the Wheel Sensors list will have the name B57A3 When selected and shown in the graph the data from the two physical wheels will be combined to appear as one contiguous data stream named B57A3 Customizing the Light Dark Graph The light dark graph displays data from a light sensor or from a manually entered day night schedule The Light Dark settings control the information shown on the Light Dark graph The data in the light dark graph can be binned like that in the wheel graph or displayed as unbinned raw data To switch between binned or raw data in the light dark graph select Tools Bin Light Sensor Data Select a Database If multiple databases are open the light sensor or manual schedule must be picked from one of the open databases Select the database in this pull down control Select Manual Schedule or Use Light Sensor Use the radio buttons to specify using either the manual schedule or light sensor as the light dark graph source Creating a Manual Schedule When the Manual Schedule radio button is selected a schedule showing lights on and lights off times appear Double click the schedule or click the Edit Schedule button to show the Manual Light Dark Scheduler dialog Figure 2 10 Light Dark Controls with Manual Schedule Radio Button Selected LightiDark heel Analysis120071112 104513 wls Edit Schedule Manual Schedule C Use Light Sensor Lights ON Lights OFF 4 11 12
16. WHEEL MANAGER DATA ANALYSIS USERS MANUAL SOF 861 User s Manual DOC 220 Rev 1 0 Copyright O 2009 All Rights Reserved MED Associates Inc P 0 Box 319 St Albans Vermont 05478 www med associates com MED ASSOCIATES INC WHEEL MANAGER DATA ANALYSIS TABLE OF CONTENTS CROP Lame DONNEES ER ii 1 User aC C MM PIE 1 9 2 Crue OU al VSO NETT UU TT 2 Opening the Data File s hme emen 2 Customizing tne Wheel Sensor Gap oc feda aoc ea db dca OG abo 3 Using TuS GUIS a de 7 Combining Data for Wheels with the Same 9 6 7 Customizihg the Light Dark Graphi 8 Customizing the Environmental Sensor Graph 11 Add Delete Edit Annotations nnne nnn 12 T TS 13 EXDOFUEDIS COMM Cl aI NG 16 Changing the Refresh Rate mme emen annis 16 Seng CIO CK d a erdt de i Ardea den 16 urine dc 17 VIEN AIO Xe G 17 Using the Wheel Sensor Graph Cursor Hmmm ern 17 Using tne LIdnt Dark
17. e wheel sensor graph click and fill its checkbox and to remove a wheel from the graph clear its checkbox All of the wheels in the data file can be added by clicking the checkbox next to the data file name In the example shown below data will be displayed on the Wheel Sensor Graph for wheels 13 and 14 only Figure 2 2 Wheels 13 and 14 Selected Wheel Sensors C Documents and Setti Sensors are listed by the name assigned in Wheel Manager If no name was given the column label is used The column label is generated using the Hub ID Sensor Type and Sensor ID numbers The sensor type is indicated using a numeric value A Wheel Sensor ENV 044 Low Profile Running Wheel is indicated with a 1 Light Sensor with a 2 Temperature Sensor with a 3 Humidity Sensor with a 4 and Wheel Sensor ENV 044 V Vertical Running Wheel with a 5 Refer to Appendix B of this manual for further information regarding column labels Adjusting the X and Y Axis Ranges To set the wheel graph axis ranges manually select Tools Set Graph Extents Set the min and max x axis time values and the min and max y axis turn or km values in the field provided Click OK to return to the main screen with the axis extents altered Click Cancel to return without changes Figure 2 3 Set Graph Extents Dialog Set Extents Maximum 15260 Cancel Minimum Time Maximum Time 12 2007 12 00 00 AM 11 28 2007 12 00 00 AM Min
18. ed Data File with Raw Data Only Enabled Date Tue 04 01 05 11 12 35 Database C Documents and Settings Wheel Manage 20071112 104513 wls start Time Mon 11 12 07 10 00 00 End Time Tue 11 13 07 10 00 00 Hub 1 Sensor z Msqlime MsgType Battery Count 30346 134 4 455 59 49 134 4 423 Bag 134 4 455 118223 134 4 455 149284 134 4 423 1 8585 134 4514 200475 134 4514 230125 134 4 455 26905 134 4 455 297554 134 4 423 347 331 134 4 423
19. ensor s trace to the environmental sensor graph click and fill its checkbox and to remove a sensor from the graph clear its checkbox Selecting Data to Display on the Graph Use the radio buttons to specify which data to display on the Environmental Sensor Graph Light Temperature C or Relative Humidity RH Add Delete Edit Annotations Annotations are notes associated with a particular wheel or an entire database An annotation has a time component and a message The annotations can be shown on the wheel graph from the Tools menu View Annotations option Use the Tools menu Add Delete Annotation option to show the annotations in the open database s Click Tools Add Delete Annotation and the screen shown in Figure 2 14 will appear Refer to Table 2 3 to add edit or delete an annotation Figure 2 14 Add Delete Edit Annotation Dialog Add Delete Edit Annotation C Documents and Settings Jessica Desktop wheel Analysiskz0071112 108 Cancel Start Date 11 12 07 10 45 13 AM End Date Running Current Annotations 16 07 D 10 36 AM ALL WHEELS 3 11 17 07 02 08 55 PM 117 12 Onlv 11 19 07 11 18 33 PM ALL WHEELS test 11 30 07 02 24 00 AM ALL WHEELS xvz Show Annotations From Delete Only Sensor Selected Below f Al Sensors in Database Wheel Sensor Date Time ALL WHEELS 11 12 2007 12 00 00 AM Mew Annotation Text M Table 2 3 Add Delete Edit Annotation Dialog
20. est periods laid out along the x axis see Figure 5 1 The peak robustness value indicates the dominant period in the data The Bin Size setting defines the size in minutes of the time bins used to group running wheel counts This setting is also a primary determinant of the number of periods tested and by extension the resolution of the periodogram The algorithm breaks the wheel data into sections of time period P where 19 lt P lt 27 hours and P increments by the time bin size Using the example of 6 minute bins 10 bins per hour the time periods tested would be 19 0 hours 19 1 hours 19 2 hours etc up to 27 0 hours The wheel activity in each time period will be most similar to each other when the segment lengths have the same length as the subject s actual circadian period The periodogram calculation is an iterative process where the robustness of the period designated Qp is calculated for each period P The wheel s time series data are split into consecutive segments of P duration and mathematically superimposed on each other so that the first time bin of each segment is aligned The data are stored in a 2 dimensional array with each segment of P duration comprising a row and aligned time bins form the columns Therefore the number of rows equals the number of P length segments and the number of columns equals the number of time bins contained in each P length segment Column means are calculated and then the variance
21. imum LE Adjusting the Y Axis Units To change the Y Axis units select Tools Wheel Graph Y Axis Units Turns or Kilometers Figure 2 4 Tools Wheel Graph Y Axis Units Analysis About 4dd Delete Time Bin Set Graph Extents Change Refresh Rate Edit Wheel Radius Add Delete Annotation View Annotations Combine Same Wheel Mame Data Wheel Graph Axis Units CIC Clack Preferences b kilometers Stack wheel Data Bin Light Dark Graph Sensor Data Adjusting the Wheel Radius To adjust the ratio of wheel revolutions per kilometer select Tools Edit Wheel Radius and enter the wheel radius in centimeters Click the Use Default button to restore the default wheel radius Figure 2 5 Tools Edit Wheel Radius Change Wheel Radius Radius cm CircumFerence cm Turns per km TEREE Use Default Cancel Petstore wheel EU Bioserve wheel 6 0198 Use Default NOTE Applies to all databases Viewing Multiple Traces When viewing multiple traces in the graph the data may be overlaid or stacked To switch how the traces are viewed select Tools Stack Wheel Data Figure 2 6 Wheel Data Stacked Figure 2 7 Wheel Data Overlaid Adjusting the Bin Size The wheel data resolution can be adjusted using the Bin Size slider on the main screen Drag the pointer up or down the slider to change the graph data bin size The light dark graph will be unaffected by changing bin si
22. of these means is computed Qp is a ratio of the variance of time bin means for period P and the overall variance for the data set As P approaches the dominant period in the data the variance for the column means will increase and consequently the Qp for that period P The test of significance for the peak Qp value uses the Wilson and Hilferty transformation 1931 a technique allowing the conversion between chi square and z score statistics a is corrected for multiple tests using Bonferroni correction The test of significance assumes at least 10 days of data With fewer days the computed value will still be accurate but the significance test will be less sensitive The periodogram can be customized using the controls on the screen A description of each control is included in Table 5 1 Figure 5 1 Example Periodogram Periodogram for Wheel 13 Ss 23 cr ot Lu LA LZ Ew un d E a ce 23 Hours Periodogram Start Bin Size Results 100 1 12 2007 io 4sam Minutes 6 5 Days 14 Period hrs 24 00 Print d f 239 995 Metafile Periodogram End Cursor Action p lt 0 0081 Significant f Pan z 03 PM Table 5 1 Periodogram Dialog Information Periodogram Start Periodogram start time Periodogram End Periodogram end time A smaller bin size 1 minute minimum will show data in greater detail but may appear too jagged A larger bin size will show data
23. ogram End X Axis Zero f Flat with Options Metafile Threshold f Midnight 6 Actogram Start Light Dark 12 30 2008 4 22PM o d Custom 12 00 AM eus Double plat Table 4 1 Actogram Dialog Information Actogram Start Actogram start time Actogram End Actogram end time A smaller bin size 30 second minimum will show data in greater detail but may appear too jagged A larger bin size will show data in less detail but may appear smoother Controls the time at the x axis origin e f the Midnight radio button is selected the x axis origin will be 00 00 12 AM If the Actogram Start radio button is selected the x axis origin will be the time indicated in the Actogram Start field If the Custom radio button is selected a time must be entered as the x axis origin Custom is helpful for aligning light on or off time with the beginning of the graph Graph Style Select the method to display the data Line Bar or Flat graph Cursor Action Select the function of the cursor on the graph e Pan allows the user to place the cursor on the graph area and by clicking and holding the left mouse button then dragging to move the graph contents Lasso Zoom allows the user to select a rectangular area of the graph to zoom in on by clicking and holding the left mouse button over the desired graph area Hold down the Shift key and click the left mouse button in the graph to undo a lasso zoom If the Ligh
24. plays the destination folder of the exported data file Click the n LI button in the lower right corner to browse to a different destination folder When all of the correct information has been entered click OK to export the data file to the destination folder Exported files may be saved as xls Microsoft Excel files Many other spreadsheet programs can also read these files Open the desired spreadsheet software application and open the file Exported files may also be saved in tab delimited tsv or comma delimited csv formats To select the desired output format click the button next to the Output File and select the desired type in the Save as Type field Exporting to Metafile To save an image of the wheel graph as an enhanced metafile emf select File Export to Metafile Changing the Refresh Rate Wheel Analysis can display data from a database being written to by Wheel Manager The data displayed in the graphs will be updated according to the schedule set in the Change Refresh Rate dialog To display the dialog select Tools Change Refresh Rate Since the average sample rate is 30 seconds a minimum of 1 minute is allowed for the Wheel Analysis refresh rate To stop the refreshing of an open database close the database in Wheel Manager Alternatively simply set the refresh to a very high value to limit any inconvenience of refreshing data Setting Clock Preferences Times can be rep
25. resented using a 12 hour or 24 hour clock As an example 1 15 pm in 12 hour representation would be 13 15 in 24 hour notation To change the time format select Tools Clock Preferences CHAPTER 3 Viewing the Graphs Using the Wheel Sensor Graph Cursor The Wheel Graph has one cursor consisting of horizontal and vertical yellow lines The value at the point of intersection is shown at the main screen upper left corner in the Cursor Location box see Figure 2 9 The first line indicates the wheel name and the box to the right indicates the trace color of the current active trace All cursor actions below will move the cursor on the current active trace To change the current active trace select a wheel in the wheel tree wheel must be on checkbox filled Be sure that the cursor control button on the toolbar is selected in order to manipulate the cursor Figure 3 1 Wheel Graph with Cursor Table 3 1 Wheel Table 3 1 Wheel Graph Cursor Control Actions 0 0 Cursor Control Actions Double Click Moves the cursor to the nearest time position on the current active trace Left and Right Arrow Moves the cursor s time x axis position Keyboard Keys Click and Drag the Moves the cursor s time x axis position The Cursor control toolbar Vertical Position of button must be depressed Ctrl K the Cursor Click and Drag Moves the cursor to the earliest time point with the desired Y axis Horizontal Portion of
26. s Open the Wheel Analysis application and the screen shown in Figure 1 1 will appear Open the wheel data file s wls extension by clicking File Open The data will load and the screen will resemble the one shown in Figure 2 1 Figure 2 1 Wheel Analysis with Data Loaded Wheel Analysis File Pan Zoom Tools Analysis About Hel Sle otn 99 Cursor Location Bin Size 2 wk 11 1212 00 AM Time 1 000 Turns 4 wk Wheel Sensors MBN C Documents and Sett 24h Cl117 113 CO 14 C 16 12 hr 17 O 25 26 8hr 27 C 28 O 29 6 hr C 30 O 31 32 37 2hr C Wheel 1 C Wheel 2 C Wheel 2 1 hr C Wheel 3 C wheel 4 30 min 15 min 1 min lt gt Raw Light Dark v heel Analysisi20071112 104513 wls 0 Edit Schedule Manual Schedule 11 14 12 00 AM 11 19 12 00 AM 11 24 12 00 AM C Use Light Sensor Lights ON Lights OFF 11 12 08 00 AM 11 12 08 00 PV 11 13 08 00 AM 11 13 08 00 PM 11 14 08 00 AM 11 14 08 00 PM lt gt Environmental Sensors EJ C Documents and Setti 5 Light 36 t O 11353 gg C RH lt 11 14 12 00 AM 11 19 12 00 AM 11 24 12 00 AM Ready The data file name s is added as a root node leftmost in the Wheel Sensors tree Any wheels found in the database are listed under the database name as children or leaf nodes Customizing the Wheel Sensor Graph Adding and Removing Traces from the Graph To add a wheel sensor s trace to th
27. t Dark checkbox is selected the light dark periods will be displayed Clear the checkbox to show on wheel turn data versus time The source of the light dark data depends on the Light Dark setting on the main screen If the Double Plot checkbox is selected data from two consecutive days will be plotted on the same horizontal row The second day will be repeated on the left side on the line below Pame Sexshesummmiapmen Metas Saves picture of the actogram as an enhanced mette ret CHAPTER 5 Viewing the Periodogram The periodogram developed by Enright 1965 is a useful method for identifying the presence and robustness of periodicity in time series data Refinetti 1993 2004 The X chi square designation refers to subsequent contribution to Enright s periodogram by Sokolove and Bushell 1978 that provides a test of significance using the chi square distribution The Periodogram dialog in the Wheel Analysis software performs an implementation of their chi square periodogram The results of these computations are graphically displayed as is the most probable circadian period detected To view the periodogram for a specific wheel highlight the wheel on the Wheel Sensor Tree and select Analysis Periodogram or right click on the wheel and choose Periodogram from the pop up menu An example periodogram is shown in Figure 5 1 The y axis of the periodogram graph displays the robustness for each period in a range of t
28. ted using the Output Options shown in Figure B 2 The sample data file shown in Figure B 3 was generated using the same Output Options but with the Output Nulls as Zero option enabled Figure B 1 Sample Exported Data File with Labels Identified Date Tue 04 01 06 11 06 39 Database C Documents and Settings Wheel Manager 20071112_104513 wis Start Time Mon 11 12 07 10 00 00 Heading j End Time Tue 11 13 07 10 00 00 Hubs 2 Wheels 19 Bin Size min 1 Column Labels b Bin 115 116 117 118 1319 211 212 Mon 11 12 07 10 00 00 0 0 0 0 Mon 11 12 07 10 01 00 U 5 Row Mon 11 12 07 10 02 00 0 0 45 Labels Mon 11 12 07 10 03 00 0 0 31 30 Mon 11 12 07 10 04 00 1 24 7 Mon 11 12 07 10 05 00 1 33 27 21 0 Mon 11 12 07 10 06 00 11 Hub ID Sensor ID Null Values Sensor Type Figure B 2 Output Options Used to Generate Exported Data Shown Above Output Options Raw Data only Use Sensor Names Report Format M Include Heading Date Time Column v Include Row Labels Time Column I Include Column Labels Bin Number Column Output Mulls as Zero Figure B 3 Sample Exported Data File with Output Nulls as Zero Enabled Date Tue 04 01 06 11 06 39 Database C Documents and Settings Wheel Manageri20071112 104513 wls Start Time Mon 11 12 07 10 00 00 End Time Tue 11 13 07 10 00 00 Hubs 2 Wheels 19 Bin Size min 1 Bin
29. umber Column Output Mulls as Zero decis X Output File C Documents and SettingsiAll Users Documents 20080207 153527 xls ce The Export Data screen will now contain the file name of the source data file The following Output Options are available Table 2 4 Export Data Screen Information Start Date and Time By default the date and time that the data acquisition was started Can be adjusted to a later date and time if desired End Date and Time By default the date and time that the data acquisition was ended Can be adjusted to an earlier date or time if desired Bin Size min Set the desired bin size in minutes NOTE The recommended minimum bin size is one minute if wheel data only are being exported and two minutes if environmental sensor data are being exported This will prevent holes in the data Raw Data Only Disables all report Output Options and Bin Size Only one Wheel or Environmental Sensor can be selected Use Sensor Names Enable this option in order to have Sensor Names appear in the exported data file Refer to Figure B 4 NOTE f two different wheels are given the same name and the Use Sensor Names option is selected during data export the data collected from these wheels will be merged in the data file This can be useful if hardware problems occur and a wheel needs to be replaced during a study NOTE Leave Use Sensor Names unchecked if Names were not assigned to the sensors
30. y 8 426 468 Sokolove P G and Bushell W N 1978 The chi square periodogram its utility for analysis of circadian rhythms ournal of Theoretical Biology 72 131 160 Refinetti R 1993 Comparison of six methods for the determination of the period of circadian rhythms Physiology and Behavior 54 869 875 Refinetti R 2004 Non stationary time series and the robustness of circadian rhythms Journal of Theoretical Biology 227 571 581 Wilson E B and Hilferty M M 1931 The Distribution of Chi Square Proceedings of the National Academy of Sciences of the United States of America 17 684 688 APPENDIX A Software Installation If the computer being used with the Wheel Manager Data Analysis software was purchased as part of the system from MED Associates the software installation was completed at the factory If the computer was not purchased from MED Associates follow the instructions to install the software Before beginning the installation phone fax or e mail Med Associates with the registration information in order to receive the software installation password This password will be necessary during the installation process Begin software installation by inserting the Wheel Manager Data Analysis CD into the CD ROM drive The screen shown in Figure A 1 will appear Click Install the Wheel Manager software and the screen shown in Figure A 2 will appear Figure A 1 Wheel Manager Installation Main Screen
31. ze if the Tools Bin Light Sensor Data menu item is unchecked To add or remove a bin size from the slider select Tools Add Delete Time Bin and the screen shown in Figure 2 8 will appear Refer to Table 2 1 to add or delete time bins Figure 2 8 Add Delete Time Bin Dialog Add Delete Bins add Bin Bin List OK Hours Minutes Seconds gi EC Label Add gt gt Deleted Bins e e 0 0 0 3 1 1 3 Undo Delete lt lt Table 2 1 Add Delete Time Bin Dialog Information Enter the time in Hours Minutes and Seconds and enter a unique Label that is less than 10 characters The time must also be unique to the list of existing bins in the Bin List Click the Add gt gt button and the new bin will appear on the Bin List Bin List Displays all of the current time bins Delete lt lt To delete a time bin select it on the Bin List and click the Delete lt lt button This time bin will now appear on the Deleted Bins list Deleted Bins Displays all of the deleted time bins Undo gt gt To undelete a bin select it on the Deleted Bins list and click the Undo gt gt button Using the Cursor The Cursor Location section of the main screen see Figure 2 9 displays information about the wheel graph cursor s current location The cursor is a pair of yellow intersecting lines with a horizontal and a vertical component The topmost fields show the
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