[Bioc-devel] minor suggestion for BiocStyle?

[Andrzej Oleś]

Dear all,

please note that image captions in print (e.g. in journals like Nature,
Bioinformatics, Genomics to name only a few) are often typeset with a
slightly different, typically smaller font size. This makes them visually
distinct from the main paragraph text and gives more overall structure to
the document. It makes a difference especially in case of long multi-line
captions.

To give you an idea how a BiocStyle document with captions typeset with
smaller font and with boldface label would look like I attach the modified
DESeq2 vignette. Please compare with the regular one in devel.

Cheers,
Andrzej

On Sun, Sep 28, 2014 at 10:37 AM, Wolfgang Huber <whuber at embl.de> wrote:

>
> AfaIcs everybody (incl. myself) involved in this so far is an amateur when
> it comes to graphics design and text layout.
> This not to minimize the technical achievement!
> Anyway, input from someone with graphics design / text layout credentials
> (also privately) is welcome.
>
>         Wolfgang
>
> Il giorno 28 Sep 2014, alle ore 00:52, Martin Morgan <mtmorgan at fhcrc.org>
> ha scritto:
>
> > On 09/27/2014 10:01 AM, Andrzej Oleś wrote:
> >> Hi Ramon,
> >>
> >> many thanks for your feedback an for your nice suggestion! Having more
> >> distinctive image captions is for sure something worth considering. I
> >> personally like the idea of having them typeset in a slightly smaller
> font
> >> and with boldface label. Additional margin seems reasonable as well. I'm
> >> not sure about changing the label separator, though.
> >>
> >> If there are no objections I would be happy to incorporate this into
> >> BiocStyle.
> >
> >
> > Because
> >
> > - It seems very easy for one style to conflict with another in LaTeX
> >
> > - It's 'easy' (in the LaTeX sense of the word!) for the user to add
> their own customizations.
> >
> > - Style is quite a personal thing
> >
> > I'm not (without having looked at the changes!) in favor of this.
> >
> > Martin
> >
> >
> >>
> >> Best,
> >> Andrzej
> >>
> >> On Sat, Sep 27, 2014 at 8:51 AM, Ramon Diaz-Uriarte <rdiaz02 at gmail.com>
> >> wrote:
> >>
> >>> Dear All,
> >>>
> >>> I am now using BiocStyle for most of the latex I produce (even non-bioc
> >>> related, such as teaching class notes) but I find that the text of the
> >>> caption is often not distinct enough from the rest of the surrounding
> text,
> >>> especially with multi-line captions.
> >>>
> >>> I fix that using the caption package, with options
> >>>
> >>> \usepackage[margin=10pt,font=small,labelfont=bf,
> >>> labelsep=endash]{caption}
> >>>
> >>>
> >>> (directly from p. 4 of the documentation).
> >>>
> >>>
> >>> I wonder if it might be worth to make something like this the default.
> (And
> >>> I of course understand that this falls under "highly subjective choice
> and
> >>> thus user customization" and is up to us to do it if we want, so
> disregard
> >>> if irrelevant).
> >>>
> >>>
> >>> Best,
> >>>
> >>>
> >>> R.
> >>>
> >>> --
> >>> Ramon Diaz-Uriarte
> >>> Department of Biochemistry, Lab B-25
> >>> Facultad de Medicina
> >>> Universidad Autónoma de Madrid
> >>> Arzobispo Morcillo, 4
> >>> 28029 Madrid
> >>> Spain
> >>>
> >>> Phone: +34-91-497-2412
> >>>
> >>> Email: rdiaz02 at gmail.com
> >>>        ramon.diaz at iib.uam.es
> >>>
> >>> http://ligarto.org/rdiaz
> >>>
> >>> _______________________________________________
> >>> Bioc-devel at r-project.org mailing list
> >>> https://stat.ethz.ch/mailman/listinfo/bioc-devel
> >>>
> >>
> >>      [[alternative HTML version deleted]]
> >>
> >> _______________________________________________
> >> Bioc-devel at r-project.org mailing list
> >> https://stat.ethz.ch/mailman/listinfo/bioc-devel
> >>
> >
> >
> > --
> > Computational Biology / Fred Hutchinson Cancer Research Center
> > 1100 Fairview Ave. N.
> > PO Box 19024 Seattle, WA 98109
> >
> > Location: Arnold Building M1 B861
> > Phone: (206) 667-2793
> >
> > _______________________________________________
> > Bioc-devel at r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/bioc-devel
>
>
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