Convert BAM to SQLite UMI Matrix
Usage
fastF_bam2db(
bam,
feature,
barcode,
out = ".",
dbname = ":memory:",
cell = 1,
depth = 1,
seed = 926L,
umicopies = FALSE
)Arguments
- bam
Path to BAM file (required)
- feature
Path to feature list file (required)
- barcode
Path to barcode list file (required)
- out
Output directory (default: ".")
- dbname
Database name (default: ":memory:")
- cell
Rate of cell barcode (default: 1.0)
- depth
Rate of depth (default: 1.0)
- seed
Random seed (default: 926)
- umicopies
Whether to store umi.tsv.gz (default: FALSE)