summaryrefslogtreecommitdiff
path: root/Master/texmf-doc/doc/english/latex-course/LaTeX-Course.tex
blob: 6b2504cda9abc1f5b8b058c01cf40d3ed38d5cbb (plain)
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
415
416
417
418
419
420
421
422
423
424
425
426
427
428
429
430
431
432
433
434
435
436
437
438
439
440
441
442
443
444
445
446
447
448
449
450
451
452
453
454
455
456
457
458
459
460
461
462
463
464
465
466
467
468
469
470
471
472
473
474
475
476
477
478
479
480
481
482
483
484
485
486
487
488
489
490
491
492
493
494
495
496
497
498
499
500
501
502
503
504
505
506
507
508
509
510
511
512
513
514
515
516
517
518
519
520
521
522
523
524
525
526
527
528
529
530
531
532
533
534
535
536
537
538
539
540
541
542
543
544
545
546
547
548
549
550
551
552
553
554
555
556
557
558
559
560
561
562
563
564
565
566
567
568
569
570
571
572
573
574
575
576
577
578
579
580
581
582
583
584
585
586
587
588
589
590
591
592
593
594
595
596
597
598
599
600
601
602
603
604
605
606
607
608
609
610
611
612
613
614
615
616
617
618
619
620
621
622
623
624
625
626
627
628
629
630
631
632
633
634
635
636
637
638
639
640
641
642
643
644
645
646
647
648
649
650
651
652
653
654
655
656
657
658
659
660
661
662
663
664
665
666
667
668
669
670
671
672
673
674
675
676
677
678
679
680
681
682
683
684
685
686
687
688
689
690
691
692
693
694
695
696
697
698
699
700
701
702
703
704
705
706
707
708
709
710
711
712
713
714
715
716
717
718
719
720
721
722
723
724
725
726
727
728
729
730
731
732
733
734
735
736
737
738
739
740
741
742
743
744
745
746
747
748
749
750
751
752
753
754
755
756
757
758
759
760
761
762
763
764
765
766
767
768
769
770
771
772
773
774
775
776
777
778
779
780
781
782
783
784
785
786
787
788
789
790
791
792
793
794
795
796
797
798
799
800
801
802
803
804
805
806
807
808
809
810
811
812
813
814
815
816
817
818
819
820
821
822
823
824
825
826
827
828
829
830
831
832
833
834
835
836
837
838
839
840
841
842
843
844
845
846
847
848
849
850
851
852
853
854
855
856
857
858
859
% -*- TeX:US -*-
\NeedsTeXFormat{LaTeX2e}
\documentclass[presentation,hideothersubsections,final,10pt]{beamer}
% LaTeX course created for the Biochemistry faculty at RUSM. The course is based on the
% /info/german/tex-kurs by Rainer Rupprecht (1988), which I have translated to English and
% taken to LaTeX2e/Beamer. Additional info from the l2kurz introduction to LaTeX.
% This material may be used under Gnu Copyleft

% everyone:
\usepackage{german,siunitx,hyperref,graphicx,arev,amsmath,textcomp,wasysym,marvosym,isotope,chemarrow}
\usepackage[latin1]{inputenc}
\usepackage[T1]{fontenc}
\usepackage[Euler]{upgreek}

\mode<article>{\usepackage{fullpage}}
\mode<presentation>{\usetheme{Goettingen}\usecolortheme{ross}}
\mode<handout>{\setbeamercolor{background canvas}{bg=black!5}}
\beamertemplatenavigationsymbolsempty

\newcommand{\ph}{\textit{p}H}

\newcommand{\single}{\raisebox{0.25ex}{\ensuremath{-}}}
\newcommand{\double}{\raisebox{0.25ex}{\ensuremath{=}}}
\newcommand{\triple}{\raisebox{0.25ex}{\ensuremath{\equiv}}}
\makeatletter
\DeclareRobustCommand{\chemical}[1]{%
    {\(\m@th
     \edef\resetfontdimens{\noexpand\)%
         \fontdimen16\textfont2=\the\fontdimen16\textfont2
         \fontdimen17\textfont2=\the\fontdimen17\textfont2\relax}%
     \fontdimen16\textfont2=2.7pt \fontdimen17\textfont2=2.7pt
     \mathsf{#1}%
     \resetfontdimens}}
\makeatother

\frenchspacing \selectlanguage{english}

\title{The \alert{\LaTeX} document preparation system}
\institute{Department of Biochemistry, RUSM}
\author{Dr Engelbert Buxbaum}
\date{July 2008 \vspace{5mm}\\
    \includegraphics[height=15mm]{Graphics/Ross-Siegel}\hspace{5mm}
    \includegraphics[height=15mm]{Graphics/30th-Anniversary-logo}
    }

\definecolor{darkgreen}{rgb}{0.008,0.417,0.067}

\begin{document}
\setbeamertemplate{footline}
  {%
    \insertframenumber
  }

\frame{\titlepage}

\section{Introduction}

\begin{frame}
  \frametitle{Name of the game}
  \begin{description}
    \item[\TeX]{typesetting system developed by
        \textsc{Donald E. Knuth} (Stanford University) to
        create beautiful documents, especially those
        containing maths. \TeX\ is free software with
        copyright vested in the American Mathematical
        Society.}
    \item[\LaTeX]{\TeX -macroprocessor written by \textsc{Leslie
        Lamport}, which implements a markup-language. Users can
        concentrate on the structure of their document rather than on
        formatting.}
  \end{description}
\end{frame}

\begin{frame}
  \frametitle{Typographic design}
  \begin{itemize}
    \item{craft that needs to be learned}
    \item{not about esthetics but about function: Books are
        read, not displayed in a museum}
  \end{itemize}
\end{frame}

\subsection{Advantages and disadvantages}

\begin{frame}
  \frametitle{Advantages}
  \begin{itemize}
     \item{Several professional styles are available that
         make documents look ``like printed''. Changing
         style requires changing one single line in the
         document, consistency is ensured.}
     \item{High quality math typesetting}
     \item{Only a few commands to define the structure of
         text, no knowledge of typography or book design
         required.}
     \item{Complex scientific documents can be created
         automatically:
         \begin{itemize}
           \item{bibliography}
           \item{index}
           \item{crossreferences}
           \item{table of contents, lists of figures,
               tables etc.}
           \item{...}
         \end{itemize} }
     \item{Operating-system independent}
     \item{Long-term storage of documents: ASCII rather
         than binary}
     \item{Free software with source code available: Errors
         are corrected rapidly}
  \end{itemize}
\end{frame}

\begin{frame}
  \frametitle{Disadvantages}
  \begin{itemize}
    \item{Learning curve}
    \item{Major changes in layout may require rewriting the
        style file (blessing in disguise)}
    \item{One gets an eye for all the bad documents out
        there}
  \end{itemize}
\end{frame}

\subsection{Resources}

\begin{frame}
  \frametitle{Resources}
  \begin{description}
    \item[Software]{CTAN, i.e.
        \href{www.tug.org}{\texttt{\alert{www.tug.org}}} for the US}
    \item[Help]{Usenet: comp.text.tex}
    \item[Introduction]{l2short available in various languages}
    \item[Literature]{The \LaTeX -companion (\textsc{Mittelbach}
        \textit{et al}, 2004)}
    \item[Symbols]{Comprehensive symbol list from CTAN}
  \end{description}
\end{frame}

\section{Structure of a \LaTeX\ document}

\begin{frame}
  \frametitle{Boxes and glue}
  \begin{itemize}
    \item{Box (letter) + Glue (space) + Box + ... = larger
        Box (word)}
    \item{Words are treated as boxes to form lines, lines
        paragraphs and paragraphs pages}
    \item{Glue can shrink and expand within limits}
  \end{itemize}
\end{frame}

\begin{frame}[fragile]
  \frametitle{Structure of a \LaTeX -document}
  {\color{darkgreen} \begin{verbatim}
    % -*- TeX:US -*-                % for text-editor
    \NeedsTeXFormat{LaTeX2e}        % for TeX-system
    \documentclass[options]{style}

    \usepackage[latin1]{inputenc}
    \usepackage[T1]{fontenc}

    \author{}
    \title{}
    \date{}

    \begin{document}
    \maketitle

    \chapter{}
    ...
    \end{document}
  \end{verbatim} }
\end{frame}

\subsection{classes}

\begin{frame}
  \frametitle{Document classes}
  \begin{tabular}{llp{0.5\textwidth}}
     \hline
     \LaTeX & Koma-Script & purpose \\
     \hline
     article & scrartcl & journal papers, short reports \\
     report  & scrreprt & longer text with several chapters, e.g. thesis \\
     book    & scrbook  & books \\
     letter  & scrlettr & letters \\
     beamer  &          & slide presentations \\
     sciposter &        & conference posters \\
     \hline
  \end{tabular}

  Apart from Koma-Script another alternative style package is
  \alert{memoir}. Also publisher-specific styles (e.g.
  Springer, Elsevier, Teubner etc.
\end{frame}

\begin{frame}
  \frametitle{Class options}
  \begin{description}
    \item[Font size]{10pt | 11pt | 12pt...}
    \item[Paper size]{a4paper | legalpaper...}
    \item[equations]{fleqn, leqno }
    \item[title]{titlepage |  notitlepage}
    \item[columns]{onecolumn | twocolumn}
    \item[printing]{oneside | twoside}
  \end{description}
\end{frame}

\section{Basic commands}

\subsection{Special characters}

\begin{frame}[fragile]
  \frametitle{Input characters}
  Some characters have special meaning in \TeX , if you need
  them they have to be entered as \TeX -commands:

  \vspace{5mm}
  \begin{tabular}{lll}
    $\backslash$~~   & start command        & {\color{darkgreen}\verb+$\backslash$+}    \\
                     &                      & note: {\color{darkgreen}\verb+\\+} = newline \\
    \$               & toggle math modus    & {\color{darkgreen}\verb+\$+}              \\
    \&               & tabulator            & {\color{darkgreen}\verb+\&+}              \\
    \%               & rest of line comment & {\color{darkgreen}\verb+\%+}              \\
    \#               &                      & {\color{darkgreen}\verb+\#+}              \\
    \textasciitilde  &                      & {\color{darkgreen}\verb+\textasciitilde+} \\
    \textbar         & vert. lines in table & {\color{darkgreen}\verb+\textbar+}        \\
    \_               & start subscript      & {\color{darkgreen}\verb+\_+}              \\
    \textasciicircum & start superscript    & {\color{darkgreen}\verb+\textasciicircum+}\\
    \{ \}            & command delimiter    & {\color{darkgreen}\verb+\{ \}+}           \\
    $[\ ]$           & command delimiter    & {\color{darkgreen}\verb+$[ ]$+}           \\
    `` ''            & quotation marks      & {\color{darkgreen}\verb+`` ''+}           \\
    $> <$            & tabbing              & {\color{darkgreen}\verb+$> <$+}           \\
  \end{tabular}
\end{frame}

\subsection{Hypens \& Cie}

\begin{frame}[fragile]
  \frametitle{Hypen, minus ...}
  A horizontal line can mean a lot of things, depending on
  length and thickness:

  \vspace{5mm}
  \begin{tabular}{lll}
    O-legs           & {\color{darkgreen}\verb+O-legs+}           \\
    10--18 o'clock   & {\color{darkgreen}\verb+10--18 o'clock+}   \\
    ja -- oder nein? & {\color{darkgreen}\verb+ja -- oder nein?+} \\
    yes---or no?     & {\color{darkgreen}\verb+yes---or no?+}     \\
    0, 1 and --1     & {\color{darkgreen}\verb+0, 1 and --1+}     \\
  \end{tabular}
\end{frame}

\section{Structuring text}

\subsection{Sectioning}

\begin{frame}[fragile]
  \frametitle{Sectioning commands}
  \begin{itemize}
    \item{\alert{$\backslash$part\{\}}}
    \item{\alert{$\backslash$chapter\{\}}}
    \item{{\color{darkgreen}$\backslash$section\{\}}}
    \item{{\color{darkgreen}$\backslash$subsection\{\}}}
    \item{{\color{darkgreen}$\backslash$subsubsection\{\}}}
    \item{{\color{darkgreen}$\backslash$paragraph\{\}}}
  \end{itemize}
\end{frame}

\begin{frame}
  \frametitle{Breaking down large documents}
  Use separate files for, say, each chapter. One main file with
  limbo and commands to include the others:
  \begin{description}
    \item[{\color{darkgreen}$\backslash$input\{\}}]{reads file ``as is''}
    \item[{\color{darkgreen}$\backslash$include\{\}}]{equiv. to
        {\color{darkgreen}$\backslash$clearpage $\backslash$input\{\}
        $\backslash$clearpage}}
    \item[{\color{darkgreen}$\backslash$includeonly\{\}}]{used in limbo to
        limit files {\color{darkgreen}$\backslash$included} }
  \end{description}
\end{frame}

\begin{frame}
  \frametitle{What is where?}
    \begin{itemize}
        \item{{\color{darkgreen}$\backslash$tableofcontents}}
        \item{{\color{darkgreen}$\backslash$listoffigures}}
        \item{{\color{darkgreen}$\backslash$listoftables}}
        \item{}
        \item{{\color{darkgreen}$\backslash$bibliographystyle\{plainnat\}}}
        \item{{\color{darkgreen}$\backslash$bibliography\{references\}}}
        \item{}
        \item{{\color{darkgreen}$\backslash$printindex}}
    \end{itemize}
\end{frame}

\subsection{Fonts}

\begin{frame}
  \frametitle{Emphasizing}
    \begin{description}
       \item[{\color{darkgreen}$\backslash$textit\{\}}]{italics, used for
           foreign words, species names etc: \textit{Staph.
           aureus}}
       \item[{\color{darkgreen}$\backslash$textsl\{\}}]{\textsl{slanted}}
       \item[{\color{darkgreen}$\backslash$emph\{\}}]{used for emphasizing:
           this is \emph{not} the case}
       \item[{\color{darkgreen}$\backslash$textsc\{\}}]{small caps, used for
           names of persons: \textsc{Neil Armstrong} was
           the first man on the moon.}
       \item[{\color{darkgreen}$\backslash$textbf\{\}}]{bold face: used to
           make something really \textbf{stick out}.}
       \item[{\color{darkgreen}$\backslash$textsf\{\}}]{sans serif, often used
           as base font on slides. Also used for chemical
           equations.}
       \item[{\color{darkgreen}$\backslash$texttt\{\}}]{typewriter, used for
           computer related material like code or URLs:
           \texttt{http://www.rossmed.edu.dm/}}
    \end{description}
    \alert{Note:} Slides use sanserif font: No small caps, slanted instead of italics!
\end{frame}

\begin{frame}[fragile]
  \frametitle{Font sizes}
    {\begin{tabbing} \texttt{xfootnotesizexx}\= und dann der Text
        \kill
        {\color{darkgreen}\verb|\tiny|}         \> \tiny         microscopic font           \\
        {\color{darkgreen}\verb|\scriptsize|}   \> \scriptsize   very tiny font (subscripts)\\
        {\color{darkgreen}\verb|\footnotesize|} \> \footnotesize tiny font (footnotes)      \\
        {\color{darkgreen}\verb|\small|}        \> \small        small font                 \\
        {\color{darkgreen}\verb|\normalsize|}   \> \normalsize   normal font                \\
        {\color{darkgreen}\verb|\large|}        \> \large        large font                 \\
        {\color{darkgreen}\verb|\Large|}        \> \Large        larger font                \\
        {\color{darkgreen}\verb|\LARGE|}        \> \LARGE        very large font            \\[3pt]
        {\color{darkgreen}\verb|\huge|}         \> \huge         huge font                  \\[3pt]
        {\color{darkgreen}\verb|\Huge|}         \> \Huge         very huge font
    \end{tabbing}}
    Note: \alert{not} a command: {\color{darkgreen}\verb+{\small foo bar}+}
\end{frame}

\subsection{Lists}

\begin{frame}[fragile]
  \frametitle{Simple lists}
    Please believe me:
    \begin{itemize}
        \item{Few swallows can turn winter into summer.}
        \item{Inside it's colder than in the night.
            \begin{itemize}
                \item{In the morning it pulls.}
                \item{At noon he pushes.}
                \item{In the evening she goes.}
                \end{itemize} }
        \item{Every nonsense must find an end.}
    \end{itemize}
    {\color{darkgreen}\small \begin{verbatim}
Please believe me:
\begin{itemize}
    \item{Few swallows can turn winter into summer.}
    \item{Inside it's colder than in the night.
        \begin{itemize}
            \item{In the morning it pulls.}
            \item{At noon he pushes.}
            \item{In the evening she goes.}
        \end{itemize} }
    \item{Every nonsense must find an end.}
\end{itemize}
    \end{verbatim} }
\end{frame}

\begin{frame}[fragile]
  \frametitle{Descriptive lists}
    Three animals you should know about are:
    \begin{description}
        \item[gnat:]{A small animal, found in the North
            Woods, that causes no end of trouble.}
        \item[gnu:]{A large animal, found in crossword
            puzzles, that causes no end of trouble.}
        \item[armadillo:]{A medium-sized animal, named
            after a medium-sized Texas city which causes no
            end of trouble.}
    \end{description}
    {\color{darkgreen}\small \begin{verbatim}
\begin{description}
    \item[gnat:]{A small animal, found in the North
        Woods, that causes no end of trouble.}
    \item[gnu:]{A large animal, found in crossword
        puzzles, that causes no end of trouble.}
    \item[armadillo:]{A medium-sized animal, named
        after a medium-sized Texas city which causes
        no end of trouble.}
\end{description}
\end{verbatim} }
\end{frame}

\begin{frame}[fragile]
  \frametitle{Enumerated lists}
    These are the main points:
    \begin{enumerate}
        \item{first item}
        \item{second item}
        \item{third item
           \begin{enumerate}
             \item{first sub-item}
             \item{second sub-item}
           \end{enumerate} }
    \end{enumerate}
    {\color{darkgreen}\small \begin{verbatim}
These are the main points:
\begin{enumerate}
    \item{first item}
    \item{second item}
    \item{third item
       \begin{enumerate}
         \item{first sub-item}
         \item{second sub-item}
       \end{enumerate} }
\end{enumerate}
\end{verbatim} }
\end{frame}

\subsection{Tables and stuff}

\begin{frame}[fragile]
  \frametitle{Tabbing}
    \begin{tabbing}
        If \= it's raining           \\
            \> then \= put on boots, \\
            \>      \> take hat;     \\
            \> else \> smile.        \\
        Leave house.
    \end{tabbing}
    {\color{darkgreen}\small \begin{verbatim}
\begin{tabbing}
    If \= it's raining           \\
        \> then \= put on boots, \\
        \>      \> take hat;     \\
        \> else \> smile.        \\
    Leave house.
\end{tabbing}
    \end{verbatim} }
\end{frame}

\begin{frame}[fragile]
  \frametitle{Tabular}
    \begin{tabular}{|r||c|p{2.5in}|}
        \hline
        \multicolumn{3}{|c|}{\sc GG\&A Hoofed Stock} \\
        \hline
        \hline
        \multicolumn{1}{|c||}{\bf Year} & \bf Price   & \multicolumn{1}{c|}{\bf Comments} \\
        \hline
        1971 & 97--245   & Bad year for farmers in the west.     \\ \hline
          72 & 245--245  & Light trading due to a heavy winter.  \\ \hline
          73 & 245--2001 & No gnus was very good gnus this year. \\ \hline
    \end{tabular}
    {\color{darkgreen}\scriptsize \begin{verbatim}
\begin{tabular}{|r||c|p{2.5in}|}
    \hline
    \multicolumn{3}{|c|}{\sc GG\&A Hoofed Stock} \\
    \hline
    \hline
    \multicolumn{1}{|c||}{\bf Year} & \bf Price   & \multicolumn{1}{c|}{\bf Comments} \\
    \hline
    1971 & 97--245   & Bad year for farmers in the west.     \\
    \hline
      72 & 245--245  & Light trading due to a heavy winter.  \\
    \hline
      73 & 245--2001 & No gnus was very good gnus this year. \\
    \hline
\end{tabular}
    \end{verbatim} }
\end{frame}

\begin{frame}[fragile]
  \frametitle{Table (a float: not used on slides)}
    {\color{darkgreen}\small \begin{verbatim}
\begin{table}
    \caption{The fastest man in the world:
        Some of his possibilities}
    \label{tab:fast}
    \centering
    \begin{tabular}{|l|c|r|}
        \hline
        Disciplin & distance (m) & time (min) \\
        \hline
        Running   & 100          &  5         \\
        Swimming  & 50           & 30         \\
        Cycling   & 1000         & 20         \\
        \hline
    \end{tabular}
\end{table}
    \end{verbatim} }
    In the text the table can be referenced with: see table
    {\color{darkgreen}\verb+\ref{tab:fast}+} on page {\color{darkgreen}\verb+\pageref{tab:fast}+}.
\end{frame}

\subsection{Graphics}

\begin{frame}[fragile]
  \frametitle{Graphics}
  \includegraphics[height=0.3\textheight]{Graphics/Campus3}

  {\color{darkgreen}\footnotesize \begin{verbatim}
\includegraphics[height=0.3\textheight]{Graphics/Campus3}
  \end{verbatim} }
  \begin{itemize}
     \item{Requires \verb+\usepackage{graphicx}+}
     \item{Several file formats possible depending on
         dvi-driver. For pdfLaTeX pdf, png, jpg. }
     \item{Convert other formats e.g. with IrfanView or
         Gimp.}
     \item{other optional arguments like width, angle,
         size}
  \end{itemize}
\end{frame}

\begin{frame}[fragile]
  \frametitle{Figures }
    {\color{darkgreen}\scriptsize \begin{verbatim}
\begin{figure}
    \caption{A view of our campus. }
    \label{fig:Campus}
    \centering
        \includegraphics[height=0.3\textheight]{Graphics/Campus3}
\end{figure}
    \end{verbatim} }
 Like table, figure is a floating environment that has no
 meaning in slides. Cross-referencing works as with tables.
\end{frame}

\section{Maths}

\subsection{Math environments}

\begin{frame}[fragile]
  \frametitle{Text maths}
    if $a$ and $b$ are legs of a
    right-angled triangle and $c$ the hypotenuse, then
    $c^2=a^2+b^2$ (Theorem of Pythagoras).

    {\color{darkgreen}\small \begin{verbatim}
if $a$ and $b$ are legs of a right-angled triangle
and $c$ the hypotenuse, then $c^2=a^2+b^2$ (Theorem
of Pythagoras).
    \end{verbatim} }
\end{frame}

\begin{frame}[fragile]
  \frametitle{Display maths}
    if $a$ and $b$ are legs of a
    right-angled triangle and $c$ the hypotenuse, then
    \begin{equation}
       c^2=a^2+b^2
    \end{equation}
    (Theorem of Pythagoras).

    {\color{darkgreen}\small \begin{verbatim}
if $a$ and $b$ are legs of a right-angled triangle
and $c$ the hypotenuse, then
\begin{equation}
    c^2=a^2+b^2
\end{equation}
(Theorem of Pythagoras).
    \end{verbatim} }
\end{frame}

\subsection{Basic math commands}

\begin{frame}[fragile]
  \frametitle{Formulas}
    \begin{displaymath}
        x^5 \qquad \qquad x_1 \qquad \qquad \sqrt{x^2+\sqrt[3]{y}}
    \end{displaymath}
    {\color{darkgreen}\begin{verbatim}
x^5     x_1       \sqrt{x^2+\sqrt[3]{y}}
    \end{verbatim}}

    \begin{displaymath}
        \frac{1}{\frac{x^2+y^2+z^2}{x+y}} \qquad \qquad {n\choose {n-k}}
    \end{displaymath}
    {\color{darkgreen}\begin{verbatim}
\frac{1}{\frac{x^2+y^2+z^2}{x+y}}  {n\choose {n-k}}
    \end{verbatim}}

    \begin{displaymath}
        \int \limits_{-\infty}^{\infty}x^3 \qquad \qquad \sum_{i=1}^{n}a_i
    \end{displaymath}
    {\color{darkgreen}\begin{verbatim}
\int \limits_{-\infty}^{\infty}x^3  \sum_{i=1}^{n}a_i
    \end{verbatim}}
\end{frame}

\begin{frame}[fragile]
  \frametitle{Aligning equations}
    \begin{align}
        f(x)                & =  \cos x \\
        f'(x)               & =  -\sin x \\
        \int_{0}^{x} f(y)dy & =  \sin x
    \end{align}
    {\color{darkgreen}\small \begin{verbatim}
\begin{align}
    f(x)                & =  \cos x \\
    f'(x)               & =  -\sin x \\
    \int_{0}^{x} f(y)dy & =  \sin x
\end{align}
    \end{verbatim} }
\end{frame}

\section{Changing the layout}

\subsection{Counters and parameters}

\begin{frame}[fragile]
  \frametitle{Internal Counter + parameters}
    Change parameters:
    {\color{darkgreen}\begin{verbatim}
\setlength{\parindent}{0pt}
\setlength{\parskip}{5pt plus 2pt minus 1pt}
\addtolength{\textwidth}{60pt}
    \end{verbatim}}

    Set counters:
    {\color{darkgreen}\begin{verbatim}
\setcounter{page}{0}
\addtocounter{page}{10}
    \end{verbatim}}

    Output counter content: This is page \thepage .\\
    {\color{darkgreen}\verb+This is page \thepage .+}
\end{frame}

\subsection{Distances}

\begin{frame}[fragile]
  \frametitle{Horizontal distance}
    Here we have \hspace{2cm} \SI{2}{cm} distance.

    {\color{darkgreen}\begin{verbatim}
Here we have \hspace{2cm} \SI{2}{cm} distance.
    \end{verbatim}}

    left\hfill right
    {\color{darkgreen}\begin{verbatim}
left\hfill right
    \end{verbatim}}
    \begin{tabbing}
        \texttt{xenspace}\qquad \= \kill
        {\color{darkgreen}\verb|\,|}       \> very small distance \\
        {\color{darkgreen}\verb|\enspace|} \> as wide as a number \\
        {\color{darkgreen}\verb|\quad|} \> as wide as a letter is heigh \\
        {\color{darkgreen}\verb|\qquad|} \> twice as wide as \verb|\quad| \\
        {\color{darkgreen}\verb|\hfill|} \> a distance that can expand from 0\\
                     \> to $\infty$ \\
    \end{tabbing}
\end{frame}

\begin{frame}[fragile]
  \frametitle{Vertical distance}
    Here

    \vspace{2cm}

    is \SI{2}{cm} distance.
    {\color{darkgreen}\begin{verbatim}
Here

\vspace{2cm}

is \SI{2}{cm} distance.
    \end{verbatim}}

    \begin{tabbing}
        \texttt{xsmallskip}\qquad \= \kill
        {\color{darkgreen}\verb|\smallskip|} \> about $1/4$ line \\
        {\color{darkgreen}\verb|\medskip|} \> about $1/2$ line \\
        {\color{darkgreen}\verb|\bigskip|} \> about 1 line \\
        {\color{darkgreen}\verb|\vfill|} \> distance that can expand from 0\\
               \> to $\infty$ \\
    \end{tabbing}
\end{frame}

\subsection{Text position}

\begin{frame}[fragile]
  \frametitle{Centering text}
    \begin{center}
        In\\
        the\\
        middle I don't\\
        feel\\
        so marginalized\\
    \end{center}
    {\color{darkgreen}\begin{verbatim}
\begin{center}
    In\\
    the\\
    middle I don't\\
    feel\\
    so marginalized\\
\end{center}
    \end{verbatim}}
\end{frame}

\begin{frame}[fragile]
  \frametitle{Flushright text}
    \begin{flushright}
       This is not a political statement
    \end{flushright}
    {\color{darkgreen}\begin{verbatim}
\begin{flushright}
    This is not a political statement
\end{flushright}
    \end{verbatim}}
\end{frame}

\section{Specialties}

\subsection{The index}

\begin{frame}[fragile]
  \frametitle{Indexing commands}
  \begin{description}
    \item[simple]{\color{darkgreen}\verb+gnat\index{gnat}+}
    \item[subtopics]{\color{darkgreen}\verb+gnat\index{gnat!size of}+}
    \item[page range]{\color{darkgreen}\verb+\index{gnat|(}...\index{gnat|)}+}
    \item[reference]{\color{darkgreen}\verb+\index{gnat|see{mosquito}}+}
    \item[font]{\color{darkgreen}\verb+gnat\index{gnat@\textit{gnat}}+}
  \end{description}
  After first \LaTeX\ run, start \alert{makeindx} to sort the index.
\end{frame}

\subsection{List of acronyms}

\begin{frame}[fragile]
  \frametitle{Acronyms}
  Assume the following list of acronyms:
  {\color{darkgreen}\begin{verbatim}
\begin{acronym}
  \acro{nfkb}[NF-$\upkappa$B]{nuclear factor
     $\upkappa$B}, protein in gene regulation
\end{acronym}
  \end{verbatim}}
  This will print as\\
  NF-$\upkappa$B: nuclear factor $\upkappa$B, protein in gene regulation

  Then
  \begin{description}
    \item[{\color{darkgreen}$\backslash$acf\{nfkb\}}]{nuclear factor $\upkappa$B (NF-$\upkappa$B)}
    \item[{\color{darkgreen}$\backslash$acs\{nfkb\}}]{NF-$\upkappa$B}
    \item[{\color{darkgreen}$\backslash$acl\{nfkb\}}]{nuclear factor $\upkappa$B}
  \end{description}
\end{frame}

\subsection{Bibliography}

\begin{frame}[fragile]
  \frametitle{BibTeX}
  Database for literature references in ASCII-format. Can be
  produced from many programs like EndNote, also from PubMed etc.
  {\color{darkgreen}\small \begin{verbatim}
@article{Alb-76,
  AUTHOR= {W.J. Albery and J.R. Knowles},
  TITLE= {Evolution of enzyme function and the
    development of catalytic efficiency},
  JOURNAL= {Biochemistry},
  VOLUME= {15},
  YEAR= {1976},
  PAGES= {5631-5640},
  ABSTRACT= {Catalytic efficiency constant kcat/Km
    defined },
  DOI= {10.1021/bi00670a032},
  LANGUAGE= {engl}
}
  \end{verbatim} }
  Similar for books, chapters, reports, thesis etc. In the text
  use {\color{darkgreen}$\backslash$cite\{Alb-76\}}. After first \LaTeX
  -run start \alert{bibtex} to create the bibliography.
\end{frame}

\subsection{Slide presentations}

\begin{frame}
  \frametitle{Beamer-slides}
  {\color{darkgreen}$\backslash$begin\{frame\} \\
  \hspace{2em}$\backslash$frametitle\{\} \\
  \hspace{2em}... \\
  $\backslash$end\{frame\}}
\end{frame}

\subsection{TeX-ing}

\begin{frame}
  \frametitle{\TeX ing}
  Always use the sequence:
  \begin{description}
    \item[\LaTeX]{produces the necessary intermediate
        files}
    \item[makeindx]{sort the index}
    \item[bibtex]{create the bibliography}
    \item[\LaTeX]{include bibliography and index, resolve
        cross-references}
    \item[\LaTeX]{resolve remaining cross-references}
  \end{description}
  Note: using pdf\LaTeX\ instead of \LaTeX\ produces pdf-files
  directly.
\end{frame}

\section{The departmental handout}

\begin{frame}[fragile]
  \frametitle{Packets used in dept. handout}
  \begin{tabular}{lp{0.6\textwidth}}
    makeidx                & index generation                          \\
    natbib                 & clean handling of bibliography            \\
    siunitx                & \verb+\SI{}{}, \num{}, \ang{}+            \\
    acronym                & administration of acronyms                \\
    isotope                & \verb+\isotope[13]{C}+ = \isotope[13]{C}  \\
    graphicx               & inclusion of diagrams                     \\
    color                  & colored text                              \\
    amsmath                & math fonts and characters                 \\
    eufrak                 & font for arrays + vectors                 \\
    textcomp               & special characters                        \\
    wasysym,marvosym,      & special symbols like \male , \female      \\
    chemarrow              & various types of arrows for equations     \\
    upgreek                & \verb+$\upalpha$+ = $\upalpha$ instead of $\alpha$ \\
    thumb                  & chapter thumbs                            \\
    isodate                & standard conform typesetting of dates     \\
    hyperref               & use of cross-referencing facilities of pdf\\
  \end{tabular}
\end{frame}

\begin{frame}[fragile]
  \frametitle{Getting consistent output}
  \begin{itemize}
    \item{{\color{darkgreen}$\backslash$chemical\{CH\_2$\backslash$double
        CH$\backslash$single OH\}} = \chemical{CH_2\double
        CH\single OH} }
    \item{{\color{darkgreen}$\backslash$ph} = \ph , similar for
        {\color{darkgreen}$\backslash$pkw, $\backslash$pka, $\backslash$poh,
        $\backslash$pI}}
    \item{{\color{darkgreen}$\backslash$Name\{Maude Leonora Menten\}} =
        \textsc{Maude Leonora Menten}}
    \item{{\color{darkgreen}$\backslash$skalar\{x\}} = $x$, similar for
        {\color{darkgreen}$\backslash$array, $\backslash$vektor,
        $\backslash$set}. Note the list of variables used in
        the appendix.}
    \item{{\color{darkgreen}$\backslash$SI\{1\}\{cm\}} =
        \SI{1}{cm},
        {\color{darkgreen}$\backslash$num\{10000\}} =
        \num{10000},
        {\color{darkgreen}$\backslash$ang\{1;2;3\}} =
        \ang{1;2;3}.}
  \end{itemize}
\end{frame}

\end{document}