Then, for manipulating these files, you should refer to their tutorial (it's beyond my skills and the scope of your question). Matrix H5I_DATASET 6667 x 24421 H5T_FLOAT Name obj_type dataset.dims dataset.type_class Lfile = connect(filename = "SCG71.loom", mode = "r+")Īttributes: creation_date, chunks, velocyto._version_, velocyto.logic, version "SCG71:AAACAAACAGCAGAAC" "SCG71:AAACAAACTTTGGGAG"Īfter that, I don't know what to do with that but I think your issue of importing a datafile is because you don't have the right package to open it.Īlternatively, you can also install the package loomR and then enter: library(loomR) Cloud marketplaces may also provide streamlined purchasing options that bring access to IT infrastructure budgets and make the total cost of ownership easier to track for your organization. "SCG71:AAACGATCCTACTTGT" "SCG71:AAACACTACGTAGAAG" "SCG71:AAACACGGCATCGCAG" Pre-built applications offered on services such as AWS Marketplace and Azure ML make it easier to get started with images built and tested by the vendor. You can then load some data > scle$CellID Metadata(4): chunks creation_date velocyto._version_ velocyto.logicĪssays(4): matrix ambiguous spliced unspliced On my computer, once I get it install, I was able to load your SCG71.loom file using: library(LoomExperiment) On bioconductor, you can also find LoomExperiment. ![]() $ ambiguous:Formal class 'dgCMatrix' with 6 slots $ unspliced:Formal class 'dgCMatrix' with 6 slots To make the set up easier, I usually copy & paste the following setup script (and use alternative 2). $ : chr "SCG71:AAACGATCCTACTTGT" "SCG71:AAACACTACGTAGAAG" "SCG71:AAACACGGCATCGCAG" "SCG71:AAACAAACAGCAGAAC". $ spliced :Formal class 'dgCMatrix' with 6 slots loom file but on the velocyto.R tutorial, it is specified to do the following: library(velocyto.R) Analyze your data using the RStudio IDE, directly from your browser. ![]() I'm not very familiar with this kind of of. RStudio Cloud is a lightweight, cloud-based solution that allows anyone to do, share, teach and learn data science online. loom file that can be open using the velocyto.R package. The file that you are trying to import is not a velocyto file but a. ![]() I'm not sure that your issues is from RStudio cloud but more about how you are trying to open the file.
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