Yes, they show under Bioc-devel, but not under Bioc-release. Building the
exact same *Rmd source from here
https://bioconductor.org/packages/devel/bioc/vignettes/BiocStyle/inst/doc/HtmlStyle.html
under Bioc-release looks quite different:
http://biocluster.ucr.edu/~tgirke/HtmlStyle.html
Thomas
On
What exactly do you mean by numbering. As far as I understand, numbering
is already there in devel:
https://bioconductor.org/packages/devel/bioc/vignettes/BiocStyle/inst/doc/HtmlStyle.html
Kasper
On Wed, Jul 29, 2015 at 10:39 PM, Thomas Girke wrote:
> Perfect, if your update in Bioc-devel eli
Perfect, if your update in Bioc-devel eliminates the awkward bullets in
front of the numbers. The lack of numbered content tables in Bioc-release
may be something we have to live with until the next Bioc release? I don't
want to overstretch Dan's or the Bioc team's patience with overly picky
style
When I roll that styles.css into the bioconductor.css file shipping with
BiocStyle, it gets rid of the bullets.
Its added to BiocStyle 1.7.5
Kasper
On Wed, Jul 29, 2015 at 9:37 PM, Kasper Daniel Hansen <
kasperdanielhan...@gmail.com> wrote:
> This is just reporting what I see using Bioc-devel:
This is just reporting what I see using Bioc-devel:
I get a TOC where each line looks like
While I agree that the bullet is kind of ugly (and would be great to get
rid of), I do get the section numbering functionality you want.
Note: for this report I am rendering the Rmd file myself, I ha
A simple formatting issue:
Since support for table of contents in R markdown vignettes has become
available, it seems like an amazing solution for many online
documentation needs in the future.
What would help me to fully to adopt to it, is a solution to get rid of
the bullets in a numbered tabl
Done in BiocGenerics 0.15.4.
H.
On 07/29/2015 11:00 AM, Hervé Pagès wrote:
Hi Steve,
On 07/29/2015 10:40 AM, Steve Lianoglou wrote:
Hi folks,
I'm looking to define a `subset` method on an S4 class of mine, but
can't find where to import the generic from.
That's because subset() is an impli
Hi all,
I'm having trouble creating a DEXSeqDataSet object (in the devel
version of DEXSeq)
Running the example included in the manual page results in the same
error I get with my own data (see below)
Many thanks for your help.
Leonard
> library(DEXSeq)
> countData <- matrix( rpois(1, 100)
From base, according to my R console:
> subset
standardGeneric for "subset" defined from package "base"
function (x, ...)
standardGeneric("subset")
Methods may be defined for arguments: x
Use showMethods("subset") for currently available ones.
On 07/29/2015 10:40 AM, Steve Lianoglou wrote:
Hi Steve,
On 07/29/2015 10:40 AM, Steve Lianoglou wrote:
Hi folks,
I'm looking to define a `subset` method on an S4 class of mine, but
can't find where to import the generic from.
That's because subset() is an implicit generic, that is, there is no
setGeneric statement for it, only setMethod
Hi folks,
I'm looking to define a `subset` method on an S4 class of mine, but
can't find where to import the generic from.
I can't seem to find it anywhere in:
* BiocGenerics
* S4Vectors
* XVector (
Even though S4Vectors has a:
setMethod("subset", "DataTable", ...)
It's not clear to m
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