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Special Forums News, Links, Events and Announcements Software Releases - RSS News clearhealth 1.0 (CHMED API branch)
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Old 07-20-2008
clearhealth 1.0 (CHMED API branch)
ImageClearHealth is a fully comprehensive practice management system and EMR. It takes DNA from the FreeMED and OpenEMR projects, and is based on the Smarty templatingengine. It includes support for medications, SOAPdata entry, clinical reporting, e-prescribing, and labs. Feature for feature, it can compete with proprietary systems like Nextgen and GE Centricity. It includes support for the iPhone and iPod touch (native application).Image

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LEARN ABOUT DEBIAN

dotter

DOTTER:(1)						      General Commands Manual							DOTTER:(1)

NAME

       dotter - Sequence dotplots with image enhancement tools.

SYNOPSIS

       dotter [options] <horizontal_sequence> <vertical_sequence> [X options]

DESCRIPTION

	      Reference:  Sonnhammer ELL & Durbin R (1995). A dot-matrix program with dynamic threshold control suited for genomic DNA and protein
	      sequence analysis. Gene 167(2):GC1-10.

       Allowed types:
	      Protein	     -	    Protein DNA 	   -	  DNA DNA	     -	    Protein

	      Options:

       -b <file>
	      Batch mode, write dotplot to <file>

       -l <file>
	      Load dotplot from <file>

       -m <float>
	      Memory usage limit in Mb (default 0.5)

       -z <int>
	      Set zoom (compression) factor

       -p <int>
	      Set pixel factor manually (ratio pixelvalue/score)

       -W <int>
	      Set sliding window size. (K => Karlin/Altschul estimate)

       -M <file>
	      Read in score matrix from <file> (Blast format; Default: Blosum62).

       -F <file>
	      Read in sequences and data from <file> (replaces sequencefiles).

       -f <file>
	      Read feature segments from <file>

       -H     Do not calculate dotplot at startup.

       -R     Reversed Greyramp tool at start.

       -r     Reverse and complement horizontal_sequence (DNA vs Protein)

       -D     Don't display mirror image in self comparisons

       -w     For DNA: horizontal_sequence top strand only (Watson)

       -c     For DNA: horizontal_sequence bottom strand only (Crick)

       -q <int>
	      Horizontal_sequence offset

       -s <int>
	      Vertical_sequence offset

	      Some X options: -acefont <font> Main font.  -font    <font> Menu font.

SEE ALSO

       http://www.cgb.ki.se/cgb/groups/sonnhammer/Dotter.html for more info.

AUTHOR

       Erik.Sonnhammer@cgb.ki.se Version 3.1, compiled Jul 10 2010

								     July 2010								DOTTER:(1)