Contents

• User's Guide
  • Introduction
    • What is ASGL?
    • Using ASGL with the TOP steering file
    • ASGL installation
  • Using ASGL
    • ASGL commands
      • #EPSF -- produce encapsulated PostScript
      • SET STAMP_TEXT -- stamp the page
      • READ_TABLE -- read the Table array of data
      • WRITE_TABLE -- write the Table array of data
      • READ_DPLOT -- read the Density array of data
      • WRITE_DPLOT -- write the Density array of data
      • WORLD -- define the extent of your data
      • AXES2D -- draw coordinate axes, ticks, and labels
      • PLOT2D -- draw a 2D line or scatter plot
      • SPECTRUM -- draw a bar code plot
      • HIST2D -- draw a 2D histogram
      • DPLOT -- draw a density plot
      • CAPTION -- place a caption next to an axis
      • RESET_CAPTIONS -- reset caption positioning
      • LINE2D -- draw a line
      • SET_RECORD -- sets RECORD to selected Table elements
      • PRINT -- print a text
      • NEW_PAGE -- start a new page
      • ARROW -- draw an arrow
      • POSTSCRIPT -- write a PostScript command
      • TRANSFORM -- transform Table or Density array data
      • RESET -- reset TOP
      • GET_BARS -- calculate histogram bars
      • GET_DENSITY -- calculate Density plot data
      • SHUFFLE_DPLOT -- re-organize the Density plot data
      • DENSITY_TO_XY -- Density to XY data
      • XY_TO_DENSITY -- XY to density data
      • LEGEND -- draw a legend
      • RESET_LEGEND -- reset legend positioning
      • PLOT_ERROR_BARS -- draw error bars
      • SELECT_DATA -- select some rows in Table array
      • SWITCH_PS -- open a new PostScript file
      • FIT -- non-linear least-squares fit of data
      • FIT2 -- non-linear least-squares fit of data
      • SMOOTH_TABLE -- smooth the Table array data
      • READ_PDB -- read a Brookhaven molecular structure
      • WRITE_PDB -- write a Brookhaven molecular structure
      • MAKE_BONDS -- make a list of bonds
      • LABEL_ATOMS -- label the selected atoms
      • DEFAULT_ATOM_COLOR -- color all the atoms
      • SELECT_ATOMS -- select atoms in a molecule
      • BALL_STICK -- draw a molecule
      • ROTATE_MOL -- rotate the molecule using rotation matrix
      • ROTATE_MOL_AXIS -- rotate the molecule around the axis
      • TRANSLATE_MOL -- translate the molecule
      • CENTER_MOL -- center the molecule
  • ASGL examples
    • Scatter plots -- scatter.top
    • Labelled scatter plots -- labls.top
    • Error bars -- error.top
    • Mixed style plots -- mixed.top
    • Histograms from raw data -- bars.top
    • Multiple histograms -- mhist.top
    • Y axis on the right -- alty.top
    • Stacked histograms -- stkhist.top
    • Spectra plots -- spectrum.top
    • Density plots -- dplot.top
    • Least-squares fitting -- dplot.top
    • Protein C plot -- 3rp2.top
    • Protein heavy atom plot -- 1fdx.top
    • Protein H atom plot -- hydr.top
    • Protein CB-CB contacts -- cbeta.top
    • Lattice model plot -- lattice.top
    • ASGL fonts, symbols, line types and standard plot positions
  • TOP language
    • The source file
    • TOP Commands
      • DEFINE_INTEGER -- define integer variables
      • DEFINE_LOGICAL -- define logical variables
      • DEFINE_REAL -- define real variables
      • DEFINE_STRING -- define string variables
      • SET -- set variable
      • OPERATE -- perform mathematic operation
      • STRING_OPERATE -- perform string operation
      • RESET -- reset TOP
      • OPEN -- open input file
      • WRITE -- write TOP objects
      • READ -- read record from input file
      • CLOSE -- close an input file
      • WRITE_TOP -- write the TOP program
      • SYSTEM -- execute system command
      • INQUIRE -- check if file exists
      • GO_TO -- jump to label
      • LABEL -- place jump label
      • INCLUDE -- include TOP file
      • CALL -- call TOP subroutine
      • SUBROUTINE -- define TOP subroutine
      • RETURN -- return from TOP subroutine
      • END_SUBROUTINE -- end definition of TOP subroutine
      • DO -- DO loop
      • IF -- conditional statement for numbers
      • STRING_IF -- conditional statement for strings
      • STOP -- exit TOP
    • Predefined TOP variables
  • top.ini file
  
  
• Index
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