Admin: Valerie Obenchain

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Valerie Obenchain ♦♦ 6.4k
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Posts by Valerie Obenchain

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Answer: A: 403 Forbidden During Install
... What is the IP of the cluster being blocked? Valerie ...
written 6 hours ago by Valerie Obenchain ♦♦ 6.4k
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News: Bioconductor Package Archives
... BioC community, Starting with BioC 3.6 we are providing an Archive directory for each release. The Archive contains all package versions that occur during the 6 month cycle. This will be done for the release branch only. The structure is similar to the CRAN Archives except there will be a separate ...
news bioconductor archive written 20 days ago by Valerie Obenchain ♦♦ 6.4k
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News: Bioconductor 3.6 is released
... Thanks to all the developers for your contribution to the project! Full release announcement here:   http://bioconductor.org/news/bioc_3_6_release/ ...
news bioconductor release written 22 days ago by Valerie Obenchain ♦♦ 6.4k
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News: Bioconductor 3.6 release: 3.6 branch created
... The BioC 3.6 branch is now ready. Remember, you always have access to 2 versions of your package in git: the "release" and "devel" versions. The “release” branch is for bug fixes and documentation improvements only. The “devel” branch is where normal development should occur.  To continue using yo ...
news bioconductor release written 23 days ago by Valerie Obenchain ♦♦ 6.4k
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News: Bioconductor 3.6 release: stop commits to git.bioconductor.org
... Hello BioC developers, We will be creating the Bioconductor 3.6 branch today in about 30 minutes, around 11:30 am EST. Please stop all pushes/commits to git.bioconductor.org before 11:30 am EST (3:30 UTC) and do not resume until further notice. We will send another email when it is OK to resume c ...
news bioconductor release written 23 days ago by Valerie Obenchain ♦♦ 6.4k
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News: Bioconductor 3.6 release
... The release of Bioconductor 3.6 will be Tuesday, October 31. Please see the schedule for details:   http://www.bioconductor.org/developers/release-schedule/ Over the next month we'll announce key deadlines on the bioc-devel mailing list:   https://stat.ethz.ch/pipermail/bioc-devel/ Part of pre ...
news bioconductor release written 9 weeks ago by Valerie Obenchain ♦♦ 6.4k
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Comment: C: Error in columns(org.Hs.eg.db) : could not find function "columns"
... Please edit your question to show the error and the output of your sessionInfo(). ...
written 10 weeks ago by Valerie Obenchain ♦♦ 6.4k
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Answer: A: Not getting the expected answers from GenomicRanges follow/precede
... I agree this can be confusing. The behavior of precede() and follow() were established years ago and are documented in both IRanges and GRanges on ?precede or ?follow. These definitions are from the GenomicRanges package, those in IRanges are very similar:         • precede: For each range in ‘x’, ...
written 10 weeks ago by Valerie Obenchain ♦♦ 6.4k
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Answer: A: SNP location annotation problem in "VariantAnnotation" package
... The IntergenicVariants class has upstream and downstream values that define "how far" from the gene to search. Defaults are shown on the ?IntergenicVariants man page: IntergenicVariants(upstream = 1e+06L, downstream = 1e+06L, idType=c("gene", "tx")) If your SNP falls outside of these ranges it wo ...
written 10 weeks ago by Valerie Obenchain ♦♦ 6.4k
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Answer: A: Passing multiple arguments (like mapply) to the MAP-function in GenomicFiles.
... Unfortunately I don't think there is a straightforward way of doing this. There is no metadata per se associated with the files. Valerie ...
written 11 weeks ago by Valerie Obenchain ♦♦ 6.4k

Latest awards to Valerie Obenchain

Scholar 5 months ago, created an answer that has been accepted. For A: about collapsed and expanded vcf file
Scholar 5 months ago, created an answer that has been accepted. For A: about collapsed and expanded vcf file
Appreciated 7 months ago, created a post with more than 5 votes. For Bioconductor 3.5 is released
Scholar 7 months ago, created an answer that has been accepted. For A: about collapsed and expanded vcf file
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: about collapsed and expanded vcf file
Teacher 8 months ago, created an answer with at least 3 up-votes. For A: about collapsed and expanded vcf file
Popular Question 8 months ago, created a question with more than 1,000 views. For merging VCF files
Scholar 10 months ago, created an answer that has been accepted. For A: about collapsed and expanded vcf file
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: about collapsed and expanded vcf file
Scholar 19 months ago, created an answer that has been accepted. For A: distinguish DataSource from Provider and ProviderVersion in makeTxDbPackage
Scholar 19 months ago, created an answer that has been accepted. For A: BiocParallel example does not work any more (sbatch produced exit code 1)
Scholar 19 months ago, created an answer that has been accepted. For A: Genomic features for genomic positions
Scholar 19 months ago, created an answer that has been accepted. For A: AnnotationHub: A RPKM data.frame of Epigenomics RoadMap Project seems strange
Scholar 19 months ago, created an answer that has been accepted. For A: Broken AnnotationHub resource (AH25517 | wgEncodeOpenChromDnaseGm12878Pk.narrowP
Appreciated 19 months ago, created a post with more than 5 votes. For New Package Submission Process
Scholar 19 months ago, created an answer that has been accepted. For A: AnnotationHub: two broad peaks from same url are not the same
Scholar 19 months ago, created an answer that has been accepted. For A: inconsistent default of file suffix
Scholar 19 months ago, created an answer that has been accepted. For A: GAGE pathway analysis (R/Bioconductor): summarizeOverlaps error
Teacher 19 months ago, created an answer with at least 3 up-votes. For A: Genomic features for genomic positions
Teacher 19 months ago, created an answer with at least 3 up-votes. For A: readGAlignmentPairs slow in problematic region
Teacher 19 months ago, created an answer with at least 3 up-votes. For A: AnnotationHub: two broad peaks from same url are not the same
Teacher 19 months ago, created an answer with at least 3 up-votes. For A: GenomicAlignments is too slow with summarizeOverlaps
Scholar 19 months ago, created an answer that has been accepted. For A: GenomicAlignments is too slow with summarizeOverlaps
Scholar 19 months ago, created an answer that has been accepted. For A: Intersecting a Granges and a GRangesList using within
Scholar 20 months ago, created an answer that has been accepted. For A: inconsistent default of file suffix

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