convert_loom_to_seurat: Convert Loom to Seurat
In scFlex: Flexible Conversion Between Single-Cell Data Objects
convert_loom_to_seurat R Documentation
Convert Loom to Seurat
Description
Reads a Loom file through AnnData and creates a Seurat object while preserving supported count data, metadata, feature metadata, and reductions.
Usage
convert_loom_to_seurat(input, output)
Arguments
input
Path to an input .loom file.
output
Path to the output Seurat .rds file.
Details
Raw counts are selected conservatively from an explicit counts layer when available or from X when it is non-negative and integer-like. The function does not guess raw counts from arbitrary named layers.
Loom is a more limited interchange format than Seurat, SingleCellExperiment, or AnnData, so only components representable by the current mapping are preserved.
Value
The output path, returned invisibly on success. If suitable raw count data cannot be identified, the function may return NULL invisibly without writing an output object.
scFlex documentation built on Sept. 29, 2026, 5:10 p.m.
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| convert_loom_to_seurat | R Documentation |
Convert Loom to Seurat
Description
Reads a Loom file through AnnData and creates a Seurat object while preserving supported count data, metadata, feature metadata, and reductions.
Usage
convert_loom_to_seurat(input, output)
Arguments
input |
Path to an input |
output |
Path to the output Seurat |
Details
Raw counts are selected conservatively from an explicit counts layer when available or from X when it is non-negative and integer-like. The function does not guess raw counts from arbitrary named layers.
Loom is a more limited interchange format than Seurat, SingleCellExperiment, or AnnData, so only components representable by the current mapping are preserved.
Value
The output path, returned invisibly on success. If suitable raw count data cannot be identified, the function may return NULL invisibly without writing an output object.
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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