Hi,
I'm trying to use the Git-SVN bridge for my package but can't seem to login at
https://gitsvn.bioconductor.org/ to create the bridge.
The same user/pass combo works for the normal svn and directory access but
gives incorrect user/password at the site.
Help?
Best regards,
Diana
Note: Thi
Hi Val,
On 03/27/2014 09:13 AM, Valerie Obenchain wrote:
I should also mention that when both 'yieldSize' in the BamFile and
'which' in ScanBamParam are set the 'which' gets priority. The point of
'yieldSize' is to provide a reasonable chunk for processing the file.
When 'which' is provided it's
On 03/27/2014 02:13 AM, Ulrich Bodenhofer wrote:
I fully agree, Michael, that this would be a great thing to have! I have
often wondered why R and the standard packages are still sticking so
much to the old-style S3 flavor though S4 is part of standard R. I
acknowledge that backward compatibili
I should also mention that when both 'yieldSize' in the BamFile and
'which' in ScanBamParam are set the 'which' gets priority. The point of
'yieldSize' is to provide a reasonable chunk for processing the file.
When 'which' is provided it's assumed that range is of reasonable chunk
size so the y
Hi Mike,
This is fixed in Rsamtools 1.15.35.
The bug was related to when the mate-pairing was performed wrt meeting
the 'yieldSize' requirement. Thanks for sending the file and
reproducible example.
The file has ~115 million records:
fl <- "wgEncodeCaltechRnaSeqGm12878R2x75Il200AlignsRep1V2
Hi Taku,
This 'error' is not due to anything in the illuminahumanv4.db package.
All that package does is link the probe IDs to Entrez Gene IDs, and then
the org.Hs.eg.db package does the remainder of the annotation. So if we
look at org.Hs.eg.db, we get this:
> select(org.Hs.eg.db, c("C16ORF
Hello Mark,
I'm writing to report an apparent error in the illuminaHumanv4.db package,
version 1.20.0. Specifically, the mapping for "C16ORF15" in ALIAS2PROBE
appears to be incorrect. Below is an R code snippet:
library("illuminaHumanv4.db")
packageVersion("illuminaHumanv4.db")
# [1] '1.20.0'
#
Dear BioC developers,
post-transcriptional regulation is a complex mechanism that plays a
central role in defining multiple cellular identities starting from a
common genome - recently modifications in the 3'UTR lengths of
transcripts have been found to have a role in this conundrum: a
shorter 3'U
I fully agree, Michael, that this would be a great thing to have! I have
often wondered why R and the standard packages are still sticking so
much to the old-style S3 flavor though S4 is part of standard R. I
acknowledge that backward compatibility is important, but, as far as I
got it, redefin
