Question: loading 10XGenomic sc-rna data into bigSCale2 for Gene regulatory network analysis
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gravatar for harris
16 days ago by
harris0
United States
harris0 wrote:

Hi , has anyone in the community used bigSCale2 to load 10XGenomic sc-rna data(the matrix.mtx.gz, barcodes.tsv, and features.tsv.gz ) files into the R program bigSCale2. Trying to construct someGRN. I have used Monocle 3 that had a quick load method for loading. Not sure if bigSCale2 has a way to make the sce dataframe. Thanks for any help. steve

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ADD COMMENTlink modified 16 days ago by jared.andrews076.4k • written 16 days ago by harris0
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gravatar for jared.andrews07
16 days ago by
jared.andrews076.4k
Memphis, TN
jared.andrews076.4k wrote:

The easiest way to do this is using the DropletUtils Bioconductor package, which has a function (read10xCounts) for easily reading in 10X data and creating a SingleCellExperiment object from it.

ADD COMMENTlink written 16 days ago by jared.andrews076.4k

thanks so much Jared, really appreciate. steve

ADD REPLYlink written 16 days ago by harris0
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