read_loom_dgCMatrix: Read a Loom matrix as a dgCMatrix
In AllenInstitute/scrattch.io: scrattch File Input/Output Handling
Description
Usage
Arguments
Value
Description
Read a Loom matrix as a dgCMatrix
Usage
1
2
read_loom_dgCMatrix(loom_file, chunk_size = 5000, row_names = "Gene",
col_names = "CellID")
Arguments
loom_file
The loom file to read
chunk_size
The number of rows to read as a chunk. For ~30k genes, a chunk of 5000 (the default) is ~1GB in memory.
row_names
The name of the Loom row_attr to use for rownames of the matrix. Default is "Gene".
col_names
The name of the Loom col_attr to use for colnames of the matrix. Default is "CellID".
Value
A dgCMatrix object with genes as columns and samples as rows.
AllenInstitute/scrattch.io documentation built on Nov. 17, 2021, 10:06 a.m.
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Description Usage Arguments Value
Description
Read a Loom matrix as a dgCMatrix
Usage
1 2 | read_loom_dgCMatrix(loom_file, chunk_size = 5000, row_names = "Gene",
col_names = "CellID")
|
Arguments
loom_file |
The loom file to read |
chunk_size |
The number of rows to read as a chunk. For ~30k genes, a chunk of 5000 (the default) is ~1GB in memory. |
row_names |
The name of the Loom row_attr to use for rownames of the matrix. Default is "Gene". |
col_names |
The name of the Loom col_attr to use for colnames of the matrix. Default is "CellID". |
Value
A dgCMatrix object with genes as columns and samples as rows.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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