add_h5_list_hash_results: Add cell hashing results to an h5_list.
In AllenInstitute/BarMixer: Hashed scRNA-seq demultiplexing for .h5 files
Description
Usage
Arguments
Value
View source: R/filter_rna_h5.R
Description
Add cell hashing results to an h5_list.
Usage
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add_h5_list_hash_results(
h5_list,
hash_category_table,
hash_count_matrix,
match_target = "barcodes"
)
Arguments
h5_list
a list object generated by running rhdf5::h5dump() on a 10x HDF5 file.
hash_category_table
a data.frame or data.table with results from HTOparser::categorize_binary_hash_matrix() consisting of 3 columns: cell_barcode, hto_category, and hto_barcode.
hash_count_matrix
(optional) a matrix or dgCMatrix with results from CITE-seq-Count, HTOparser::add_missing_hto_rows(), or HTOparser::barcode_table_to_matrix().
match_target
a character object specifying which values to use for filtering in the h5_list. If "barcodes", uses matrix/barcodes; Otherwise, looks in matrix/observations for matching values
Value
a list object with hash data added to /hash/ and /matrix/observations/
AllenInstitute/BarMixer documentation built on Dec. 17, 2021, 8:42 a.m.
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Description Usage Arguments Value
View source: R/filter_rna_h5.R
Description
Add cell hashing results to an h5_list.
Usage
1 2 3 4 5 6 | add_h5_list_hash_results(
h5_list,
hash_category_table,
hash_count_matrix,
match_target = "barcodes"
)
|
Arguments
h5_list |
a list object generated by running rhdf5::h5dump() on a 10x HDF5 file. |
hash_category_table |
a data.frame or data.table with results from HTOparser::categorize_binary_hash_matrix() consisting of 3 columns: cell_barcode, hto_category, and hto_barcode. |
hash_count_matrix |
(optional) a matrix or dgCMatrix with results from CITE-seq-Count, HTOparser::add_missing_hto_rows(), or HTOparser::barcode_table_to_matrix(). |
match_target |
a character object specifying which values to use for filtering in the h5_list. If "barcodes", uses matrix/barcodes; Otherwise, looks in matrix/observations for matching values |
Value
a list object with hash data added to /hash/ and /matrix/observations/
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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