Hi, I am the maintainer of chimera package
I got an warning indicating the extractTranscriptsFromGenome and
extractTranscripts functions from GenomicFeatures package are deprecated.
Does anybody could tell me which are the functions that are going to
substitute them?
Cheers
Raf
--
Hi Raf,
Under ?extractTranscriptsFromGenome I see this:
Description:
WARNING: The tools described in this man page are obsolete and in
the process of being DEPRECATED.
‘extractTranscriptsFromGenome’ extracts the transcript sequences
from a BSgenome data package using the transcript
Dear Colleagues,
With great pleasure we announce the 13th International Conference on the
Critical Assessment of Massive Data Analysis (CAMDA) in Boston, MA, U.S.A.,
July 11-12, 2014, held as official Satellite Meeting to 22nd Conference on
Intelligent Systems for Molecular Biology (ISMB).
Hello everyone,
The new and revised biocViews suggested by us are now live.
Link to previously suggested biocViews email:
(https://stat.ethz.ch/pipermail/bioc-devel/2014-February/005257.html)
We have made the following changes:
1. Modified all the packages in devel (2.14) to reflect the latest
Hi all,
I'm soliciting feedback on the idea of a general file 'registry' that
would identify file types by their extensions. This is similar in spirit
to FileForformat() in rtracklayer but a more general abstraction that
could be used across packages. The goal is to allow a user to supply
Hi Val,
I think it would help understand the motivations behind this proposal
if you could give an example of a method where the user cannot supply
a file name but has to create a 'File' (or 'FileList') object first.
And how the file registry proposal below would help.
It looks like you have
