NAME

       mincpik - generate images from minc files

SYNOPSIS

       mincpik [options] <infile>.mnc [<image.type>]

       mincpik generates image files from MINC volumes using the Imagemagick convert utility. Use
       -help or -man for more information and examples

DESCRIPTION

       mincpik generates image files from MINC volumes using the Imagemagick convert utility. For
       a complete list of output file types see the convert man pages.

       EXAMPLES: To display a default view, axial (z) slicing, middle slice using display.
       (display is part of the Imagemagick package)

          mincpik infile.mnc PNG:- | display -

       To generate a PNG file of the 15th coronal slice

          mincpik -slice 15 -coronal infile.mnc outfile.png

       To generate a JPG file using the hotmetal lookup table with the image range 0 to 100

          mincpik -lookup '-hotmetal' -image_range 0 100 infile.mnc outfile.jpg

       ImageMagick:  http://www.wizards.dupont.com/cristy/ImageMagick.html
          NB: ImageMagick should be compiled without 16-bit quanta.

       Currently if there is a time dimension in the file the image will only produced from the
       first time point

       Problems or comments should be sent to: a.janke\@gmail.com

OPTIONS

       -v, --verbose
           Be noisy when doing things

       --version
           Print version number and exit

       -?, --help
           Dump some quick help output

       --man
           Dump a man page

       -c --clobber
           overwrite the output file if it exists already

       -f --fake
           do a dry run, (echo cmds only). This is usually used in combination with -verbose to
           echo commands only

       --scale
           scaling factor for resulting image, by default images are output at twice their
           original resolution

       --width
           autoscale the resulting image to have a fixed image width (in pixels)

       --depth
           bitdepth for resulting image 8 or 16 (MSB machines only!)

       --title
           add a title to the resulting image, if just this option is specified the text used for
           the title is the name of the input image file.

       --title_text
           use the input string for the title [default: input-filename]. This option must be used
           in conjunction with -title

       --title_size
           font point size for the title

       --anot_bar
           create an annotated bar to match the image (use height of the output image)

       Image range and lookup table options

       --range
           valid range of values for MINC file

       --image_range
           range of image values to use for pixel intensity

       --auto_range
           automatically determine image range using a 5 and 95% PcT. (histogram)

       --lookup
           arguments to pass to minclookup

       Slicing options

       -s --slice
           slice number to get. (note this is in voxel co-ordinates)

       -z --axial --transverse
           get an axial/transverse (z) slice

       -y --coronal
           get a coronal (y) slice

       -x --sagittal
           get a sagital (x) slice

       Triplanar options

       -t --triplanar
           create a triplanar view of the input file

       --tilesize
           pixel size for each image in a triplanar

       --sagittal_offset
           offset the sagittal slice from the centre

       --sagittal_offset_perc
           offset the sagittal slice by a percentage from the centre

       --vertical
           create a vertical triplanar view (Default)

       --horizontal
           create a horizontal triplanar view

SEE ALSO

       convert(1) mincextract(1) display(1)

AUTHOR

       Andrew Janke - a.janke@gmail.com

COPYRIGHTS

       Copyright 2012 by Andrew L Janke