User: Hector Corrada Bravo

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Posts by Hector Corrada Bravo

<prev • 10 results • page 1 of 1 • next >
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What's new in epiviz
... The most recent Bioconductor version includes updates to epivizr and a new package, metavizr, for interactive visualization of metagenomic data. We wrote a post describing these, and took the opportunity to update on other developments in the Epiviz project.   https://epiviz.github.io/post/2017-05 ...
epivizr metavizr written 6 months ago by Hector Corrada Bravo60
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Answer: A: Survey on interactive visualization and Bioconductor
... We want to share results from this survey during developer day at the upcoming BioC 2016. We've had great participation but want to encourage those who haven't taken the survey yet to consider doing so in the next couple of days. https://umdsurvey.umd.edu/SE/?SID=SV_5bXhBBZ8cKY08yp Thanks! Hector ...
written 17 months ago by Hector Corrada Bravo60
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Survey on interactive visualization and Bioconductor
... Dear BioC community, As part of an NIH grant for developing interactive visualization tools for genomic data we want to reach out to the Bioconductor community for your thoughts on how these tools could be used within your data analysis activities. Please participate in this short survey and help u ...
visualization epivizr written 17 months ago by Hector Corrada Bravo60
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Answer: A: Epivisr namespace error
... Hello, This is fixed in version v1.0.2 available on SVN now, will propagate to builds within the next 24 hours. Please let me know how it goes.  ...
written 18 months ago by Hector Corrada Bravo60
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Answer: A: Minfi error with new R and bioconductor update
... Please add `sessionInfo` to your post. ...
written 2.0 years ago by Hector Corrada Bravo60
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enrichment analysis for gene pairs
... Has anyone run into this setting before and know if a package in BioC supports this? Given pairs of genes, perform enrichment analysis for pairs of categories (e.g., a pair GO BP terms, one for each gene in the pair, that appear together in the list of gene pairs more frequently than expected).   ...
go gostats category gsea written 2.1 years ago by Hector Corrada Bravo60
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Answer: A: model.matrix in metagenomeSeq
... Missing '~' in the formula specification? mod = model.matrix(~Treatment+Before+normFactor) ...
written 2.5 years ago by Hector Corrada Bravo60
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Interactive Visualization with Epivizr (what's new in this release)
... Dear BioC Users, Version 1.4 of epivizr was released as part of the new Bioconductor 3.0 release. There are a good number of new features in epivizr in this release, including the ability of running the visualization UI within R, making R/Bioconductor capable of running it's own genome browser. Yo ...
visualization epivizr written 3.0 years ago by Hector Corrada Bravo60
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Answer: A: epivizr: Input data type for heatmap
... Hi Julian, This is still a little klunky and we're working our way on making this easier in general. I've added a convenience function to do this available now on github, available on release and devel tomorrow (release:v1.2.9 and debug:v.1.3.9). See below for details. Cheers, Hector --- # exampl ...
written 3.5 years ago by Hector Corrada Bravo60
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Comment: C: Genome Browser and R
... Hi Khadeeja, You can try the 'epivizr' package as well. Following Tim's code you can try require(epivizr) mgr <- startEpiviz() devices <- lapply(seq(along=gm12978), function(i) mgr$addDevice(gm128778[[i]], histoneMarks[i])) mgr$slideshow(probes) This will open a browser window showing these ...
written 4.1 years ago by Hector Corrada Bravo60

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