ssb_res: scan_spiked_bam results from a merged cfMeDIP CRAM file...
In trichelab/spiky: Spike-in calibration for cell-free MeDIP
ssb_res R Documentation
scan_spiked_bam results from a merged cfMeDIP CRAM file (chr22 and spikes)
Description
A CompressedGRangesList object with genomic (chr22) and spikes coverage,
binned every 300bp for the genomic contigs then averaged across the bin, and
summarized for each spike contig as (the default) max coverage. (In other
words, the default output of scan_spiked_bam, restricted to a small enough
set of genomic regions to be practical for examples.) This represents what
most users will want to generate from their own merged BAMs or CRAMs, and
is used repeatedly in downstream examples throughout the package.
Usage
data(ssb_res)
Format
A CompressedGRangesList of coverage results, containing
- genomic
a GRanges with one metadata column, coverage
- spikes
a GRanges with one metadata column, coverage
Source
Generated using scan_spiked_bam on an example bam
containing chr22 and spike contigs.
trichelab/spiky documentation built on Sept. 17, 2022, 8:44 a.m.
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| ssb_res | R Documentation |
scan_spiked_bam results from a merged cfMeDIP CRAM file (chr22 and spikes)
Description
A CompressedGRangesList object with genomic (chr22) and spikes coverage,
binned every 300bp for the genomic contigs then averaged across the bin, and
summarized for each spike contig as (the default) max coverage. (In other
words, the default output of scan_spiked_bam, restricted to a small enough
set of genomic regions to be practical for examples.) This represents what
most users will want to generate from their own merged BAMs or CRAMs, and
is used repeatedly in downstream examples throughout the package.
Usage
data(ssb_res)
Format
A CompressedGRangesList of coverage results, containing
- genomic
a GRanges with one metadata column,
coverage- spikes
a GRanges with one metadata column,
coverage
Source
Generated using scan_spiked_bam on an example bam containing chr22 and spike contigs.
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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