Cory L. Strope

E-mail: cstrope AT cse DOT unl DOT edu
Office: Bioinformatics lab, N169 Beadle Center
Curriculum Vitae

L^ATEX

L^ATEX is a high-quality typesetting system, with features designed for the production of technical and scientific documentation. L^ATEX is the de facto standard for the communication and publication of scientific documents.

Learning L^ATEX can be daunting in the beginning, however, after a little practice, it is almost second nature. There is a lot of online documentation to help new users. A list of guides can be found here.

Other helpful items:

• unlthesis.cls: The document that contains the typesetting of a thesis or dissertation for the University of Nebraska - Lincoln,

• algorithm2e.sty: A style file that helps typeset algorithms.

• threeparttable.sty: Helpful for creating a table with a small caption, and a large legend (Especially useful when a table of contents is created). Also allows for footnotes to be created in a table.

• ccaption.sty: This package allows the user to make the ``Figure'' and ``Table'' command boldfaced.

• bibunits.sty, natbib.sty and multibib.sty are two packages used in conjunction with BiBTeX, for special formatting purposes. Most often found in Journal submission guideline, such as Bioinformatics.

• The L^ATEX2$\epsilon$ manual. A very helpful guide.

gnuplot

• A website for gnuplot help

• To create a graph quickly, use the command

  ( echo set term postscript default eps ; echo plot \"FILE1\", \"FILE2\", \"FILE3\", \"FILE4\" ) | gnuplot > plot.eps,
  

  where FILEx is a filename with points to be plot, and plot.eps is the output file.
• Another way to create a gnuplot document is done by running the command

  gnuplot gnu > output.eps
  

  where gnu is the file:

  set term postscript eps 20
  
  set xlabel "Branch length \(PAM units\)" font "Helvetica,24"
  set ylabel "Probability of an indel" font "Helvetica,24"
  
  plot 0.0224-0.0219*exp(-0.01168*x) notitle, "E_indels_" notitle
  

  that will produce the file output.eps: