load_squiggles: Loads raw squiggle data generated by Signal2chunk.R

In arnederoeck/NanoSatelliteR: QC, plotting, and clustering of tandem repeat segmentation created by NanoSatellite.

Description

load_squiggles() returns a list of raw Oxford Nanopore current squiggle data as generated by Signal2chunk.R

Usage

load_squiggles(dir, df = NULL)

Arguments

dir	Path denoted as a character vector of length 1.
df	An optional data.frame generated by qual_reads() to selectively load squiggles.

Details

This function requires a path to the results produced by Signal2chunk.R load_squiggles() will recursively search the directory and read all .chunk files. Results are shown in a list separated by their respective positive or negative DNA strand origin. Optionally a data.frame generated by qual_reads() can be provided to load only reads passing QC.

Examples

df <- load_summary("/storage/NanoSatellite_chunks/")
qc <- summary_qc(df)
df2 <- qual_reads(df,qc$center_cutoff)
squiggles <- load_squiggles("/storage/NanoSatellite_chunks/",df2)

arnederoeck/NanoSatelliteR documentation built on May 6, 2019, 1:35 a.m.