getReadLength: determine the most common read length for input bam_file....
In seqsetvis: Set Based Visualizations for Next-Gen Sequencing Data
Description
Usage
Arguments
Value
Examples
View source: R/functions_fetch_bam.R
Description
determine the most common read length for input bam_file. uses 50 randomly
selected regions from query_gr. If fewer than 20 reads are present, loads
all of query_gr.
Usage
1
getReadLength(bam_file, query_gr)
Arguments
bam_file
indexed bam file
query_gr
GRanges to read from bam file
Value
numeric of most common read length.
Examples
1
2
3
qgr = CTCF_in_10a_overlaps_gr[1:5]
bam_file = system.file("extdata/test.bam", package = "seqsetvis", mustWork = TRUE)
getReadLength(bam_file, qgr)
seqsetvis documentation built on Nov. 8, 2020, 5:57 p.m.
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Description Usage Arguments Value Examples
View source: R/functions_fetch_bam.R
Description
determine the most common read length for input bam_file. uses 50 randomly selected regions from query_gr. If fewer than 20 reads are present, loads all of query_gr.
Usage
1 | getReadLength(bam_file, query_gr)
|
Arguments
bam_file |
indexed bam file |
query_gr |
GRanges to read from bam file |
Value
numeric of most common read length.
Examples
1 2 3 | qgr = CTCF_in_10a_overlaps_gr[1:5]
bam_file = system.file("extdata/test.bam", package = "seqsetvis", mustWork = TRUE)
getReadLength(bam_file, qgr)
|
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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