Biocfilecache
WebBioconductor / BiocFileCache Public. Notifications. Fork 6. Star 9. master. 20 branches 0 tags. Code. 489 commits. Failed to load latest commit information. WebApr 27, 2024 · No change. But I get one solution : I purge RSQLite and V8 lib. After that, i reinstall lib with conda and not classical apt-get. Now, it's working.
Biocfilecache
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Webrekado pushed a commit to branch master in repository guix. commit 316bcd07a8ebb25fcf91350de4fe926f6a0b373f Author: Ricardo Wurmus Date: Sun Dec 15 ... WebNov 8, 2024 · Datasets are cached locally using BiocFileCache. The first time using this function, you may need to consent to creating a BiocFileCache directory if one does not already exist. getRDS: Download a processed sample from our S3 bucket in BayesSpace: Clustering and Resolution Enhancement of Spatial Transcriptomes
WebOK, I could update BiocFileCache to 1.12.1 today. Then using: setExperimentHubOption("PROXY", Sys.getenv("HTTP_PROXY")), I can finally connect to the hubs! Thanks Lori for your help and fixing this so swifty. P.S.: ideally the hubs could automatically/directly take the PROXY option from the value of the HTTP_PROXY … WebNov 8, 2024 · BiocFileCache is designed to help manage local and remote resource files stored locally. It provides a convenient location to organize files and once added to the …
Webdep: r-bioc-biocfilecache GNU R management of files across sessions dep: r-cran-httr GNU R tools for working with URLs and HTTP dep: r-cran-openssl GNU R toolkit for encryption, signatures and certificates based on OpenSSL dep: r-cran-progress GNU R terminal progress bars dep: r-cran-rappdirs WebJun 10, 2012 · 3 You'll need to install the operating system libraries libcurl and libxml. The precise specification depends on your operating system; for me sudo apt-get install libcurl4-openssl-dev and libxml2-dev. Once these are installed, biocLite or install.packages will work equally well. – Martin Morgan Jun 10, 2012 at 1:35 1
WebDec 1, 2024 · BiocFileCache: for downloading and saving a local cache of the data SpatialExperiment: for reading the spaceranger files provided by 10x Genomics rtracklayer: for importing a gene annotation GTF file lobstr: for checking how much memory our object is using spatialLIBD: for launching an interactive website to explore the data
WebThey all seem to produce similar error messages (see below) and it seems to be some core dependency packages involved in the installation error, either AnnotationDbi or … green body paint cosplayWebPackage ‘BiocFileCache’ March 31, 2024 Title Manage Files Across Sessions Version 2.7.2 Description This package creates a persistent on-disk cache of files that the user … flowers portland oregon deliveryWebInstalling the package bit outside of bioconductor i.e. via the standard install.packages ("bit") worked and all the packages now seem to install properly. I think I was just a little naive/dumb in thinking that BiocManager::install ("Pkg", dependencies = TRUE) would load all the required dependencies for the Bioconductor packages. green body suits for halloweenWebNov 8, 2024 · The package defines 'BiocFileCache', 'BiocFileCacheBase' and 'BiocFileCacheReadOnly' classes. Slots unique to 'BiocFileCache' and related classes: … green body paint sprayWebApr 10, 2024 · 1. Use the AnnotationHub package to obtain data on “CpG Islands” in the human genome. Question: How many islands exists on the autosomes? library(IRanges) library(GenomeInfoDb) library(GenomicRanges) library(dbplyr) library(BiocFileCache) library(rtracklayer) library(AnnotationHub) flowers portland indianaWebMar 6, 2024 · pyBiocFileCache File system based cache for resources & metadata. Compatible with BiocFileCache R package Note: Package is in development. Use with caution!! Installation Package is published to PyPI pip install pybiocfilecache Initialize a … green body spray paint for halloweenWebDec 7, 2024 · library (BiocFileCache) bfc <- BiocFileCache () as.data.frame ( (bfcquery (bfc, "Mus_musculus.GRCm38.102.gtf.gz") ) ADD COMMENT • link 2.2 years ago Michael Love 39k 0 I've quantified some mouse data on my end with Ensembl release 102, and I was able to reproduce the bug wherein two entries are stored in the BFC, which leads to … flowers portland tx