Welcome: an Introduction to this Site
NMRPipe: a Comprehensive Software System for Biomolecular NMR
Special Applications: NMR Drug Screening, Automation, and so on
Dipolar Couplings, Chemical Shifts, and Protein Structure
Miscellaneous

Frank's CV, Recent Slides, and Thesis

 

  

 

  Frank Delaglio, Ph.D.

   Software Science Consultant
  13840 Grey Colt Drive
  North Potomac MD 20878 USA

  Tel: 301 806-0867
  Fax: 301 309-8717
  E-mail: delaglio@nmrscience.com



NMRWish Built-In TCL Functions
drawROI: Draw spectral data (a Region-of-Interest, or ROI) in a graphics area of the screen or a PostScript page.

Flag Argument Default Description
 -roi roiID ID Number of ROI to Draw. Default is Current ROI.
Geometric Contour Level Parameters:
 -mult mult 1.3 Contour Level Factor.
 -hi hi Full First Contour Height. Use a Number, or a Keyword: Full = Full Dynamic Range. Auto = Use Auto Noise Estimate. Freeze = Use Previous Height Value.
Alternative Contour Level Parameters, or 1D Drawing:
 -fhi First Height (Minimum Height).
 -lhi Last Height (Maximum Height).
Other Contour Parameters:
 -plev 10 Positive Contour Count.
 -nlev 10 Negative Contour Count.
Contour Line Style:
 -dashPos Dashed Lines for Positive Data Only.
 -dashNeg Dashed Lines for Negative Data Only.
 -dash Dashed Lines for All Data.
 -nodash No Dashed Lines (Default).
Display Modes:
 -cont Draw Contour Display.
 -pix Draw PixMap Display.
 -dot Draw Dot Display.
 -stack Stack Plot Display.
 -scat ROI vs ROI Scatter Plot Display. Requires -roi2 option.
Stack Plot Parameters:
 -fill f 0.8 Width fraction of 1D plots.
 -rise r 0.5 Height fraction of 1D plots.
 -inc i 1 1D Index Increment.
 -yAux yMin yMax Graphics limits for Stack Height.
1D Difference Plot Parameters:
 -roi1 roiID1 ID Number of ROI 1 for Plot. Same as -roi option.
 -roi2 roiID2 ID Number of ROI 2 for Plot.
Scatter Plot Parameters:
 -roi1 roiID1 ID Number of ROI 1 for Plot. Same as -roi option.
 -roi2 roiID2 ID Number of ROI 2 for Plot.
 -roi3 roiID3 ID Number of Optional ROI 3, used to Colorize the Plot.
1D Drawing and Orientation:
 -top Horizontal 1D.
 -bottom Horizontal 1D.
 -left Vertical 1D.
 -right Vertical 1D.
 -zero Draw Zero Line.
Axis Drawing:
 -axis axList None Full-Axis Keyword List: Left Right Bottom Top None. Follow with comma-seperated Manual Axis keyword/values.
 -tic axList None Center-Tic Axis Keyword List: Left Right Bottom Top None
 -xGrid axInfo Draw Grid for X-Axis. Follow with comma-seperated Manual Axis keyword/values.
 -yGrid axInfo Draw Grid for X-Axis. Follow with comma-seperated Manual Axis keyword/values.
 -axisOnly Draw Axis Only, Without Plot.
TCL/TK Graphics Window Arguments:
 -win wID 1 Canvas Window ID.
 -update Flush graphics after drawing.
 -noupdate Don`t flush graphics after drawing.
Graphics Size and Justification:
 -xOff xOff 0.0 Additional X Offset. Default Unit is Character Size.
 -yOff yOff 0.0 Additional Y Offset. Default Unit is Character Size.
 -lw1d lw 0 Pixel Width for 1D Screen Drawing.
 -lwZero lw 0 Pixel Width for Zero Line Drawing.
 -thick Use thick line width.
 -thin Use thin line width.
 -big Use larger Font Size.
 -small Use smaller Font Size.
Graphics Coords In Terms of ROI Spectral Location:
 -roiX roiXID ROI ID for Graphic X Coord.
 -roiY roiYID ROI ID for Graphic Y Coord.
 -roiRef roiID Sets Both -roiX and -roiY.
 -fold Use Folding of Coords (Default).
 -nofold No Folding of Coords.
Graphics Coords In Terms of Existing Cell:
 -cellX cellXID Cell ID for Graphic X Coord.
 -cellY cellYID Cell ID for Graphic Y Coord.
 -cell cellID Sets Both -cellX and -cellY.
 -clip Clip to Extent of Cell.
 -noclip No Clipping.
Bounding Box:
 -box Draw Bounding Box.
 -nobox No Bounding Box.
Line Thickness, in Printer Points:
 -lw1 lw1 0.1 Thin linewidth (grids).
 -lw2 lw2 1.0 Thick linewidth (boxes).
 -lwPlus lwp 0.1 Positive contour width.
 -lwMinus lwm 1.0 Negative contour width.
Color and Overlay Options:
 -fg fgClr yellow Foreground Color Name.
 -bg bgClr none Background Color Name.
 -mask mVal -1 Plane Mask. -1=All Planes.
 -x11GX xID copy X11 Draw Mode ID/Keyword.
ROI Drawing Color Parameters:
 -color1 pClr Multi Color for Positive Levels.
 -color2 nClr Multi Color for Negative Levels.
 -colorA aClr yellow Color for Axis Text Drawing.
 -colorS sClr black Color for Axis Text Shadow.
 -colorG gClr dimGray Color for Grid Drawing.
 -plane 0 Overlay Plane to Use.
1D Drawing with Color Fill:
 -fillColor1 fc1 -1 Positive Fill Color
 -fillColor2 fc2 -1 Negative Fill Color
 -fillColor fc -1 Sets Both Fill Colors.
Positive Level HSV Color Vector:
 -pcc pCount 10 Positive Color Count.
 -pHue1 hue 0.5 First Hue (0-1).
 -pHueN hue 0.7 Last Hue (0-1).
 -pSat1 saturation 0.8 First Saturation (0-1).
 -pSatN saturation 1.0 Last Saturation (0-1).
 -pVal1 value 1.0 First Value (0-1).
 -pValN value 1.0 Last Value (0-1).
Negative Level HSV Color Vector:
 -ncc nCount 10 Negative Color Count.
 -nHue1 hue 0.5 First Hue (0-1).
 -nHueN hue 0.7 Last Hue (0-1).
 -nSat1 saturation 0.8 First Saturation (0-1).
 -nSatN saturation 1.0 Last Saturation (0-1).
 -nVal1 value 1.0 First Value (0-1).
 -nValN value 1.0 Last Value (0-1).
Arguments for Report Generation:
 -noverb Verbose Mode Off.
 -verb Verbose Mode On.
Graphics Coordinates:
  X Coord Increases from Left to Right.
  Y Coord Increases from Top to Bottom.
  No Label = Pixels, Absolute Coordinate.
  pix = Pixels, Absolute Coordinate.
  in = Inches, Relative to Cell.
  cm = Centimeter, Relative to Cell.
  mm = Millimeter, Relative to Cell.
  c1 = Char Size of Small Font, Relative to Cell.
  c2 = Char Size of Big Font, Relative to Cell.
  % = Percent of Screen, Relative to Cell.
Display Region Aspect Ratios:
  [ppm|Hz|Pts|%]/[Pix|In|cm|mm|c1|c2|%]
Manual Axis Keyword/Value Pairs:
  units= Axis units keyword (PPM, etc).
  orig= Axis origin value.
  end= Axis endpoint value.
  step= Axis step value.
  tic= Axis tic count.
  fmt= Axis print format (%f etc).
  lab= Axis label.

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last updated: Apr 20, 2011 / big frank

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