View source: R/08.get_totalCov.R
get_totalCov | R Documentation |
For hugeData, coverage of samples in each condition is merged chromosome by chromosome. For non-hugeData, per-chromosome coverage of all samples
get_totalCov(sqlite_db, chr.cov, seqname, metadata, outdir, hugeData)
sqlite_db |
A path to the SQLite database for InPAS, i.e. the output of
|
chr.cov |
A list of Rle objects storing coverage per sample for a given chromosome/scaffold |
seqname |
A character(1), the chromosome/scaffold name |
metadata |
A data frame containing the metadata for a RNA-seq experiment,
which can be extract from the SQLite database set up by |
outdir |
A character(1) vector, a path with write permission for storing InPAS analysis results. If it doesn't exist, it will be created. |
hugeData |
A logical(1), indicating whether it is huge data |
A list containing pooled coverage data. For hugeData, coverage of samples under each condition is merged chromosome by chromosome. For non-hugeData, per-chromosome coverage of all samples are returned.
chromosome/scaffold name
condition name 1
condition name 2
Haibo Liu, Jianhong Ou
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