goodBaseQuality: Filters out sequences which have bad base quality readings.
In amplican: Automated analysis of CRISPR experiments
Description
Usage
Arguments
Value
View source: R/helpers_filters.R
Description
Filters out sequences which have bad base quality readings.
Usage
1
goodBaseQuality(reads, min = 20)
Arguments
reads
(ShortRead object) Loaded reads from fastq.
min
(numeric) This is the minimum quality that we accept for
every nucleotide. For example, if we have a sequence with nucleotides which
have quality 50-50-50-50-10, and we set the minimum to 30, the whole sequence
will be a bad sequence. The minimum is set to 0 by default.
Value
(boolean) Logical vector with the valid rows as TRUE.
amplican documentation built on Nov. 8, 2020, 11:10 p.m.
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Description Usage Arguments Value
View source: R/helpers_filters.R
Description
Filters out sequences which have bad base quality readings.
Usage
1 | goodBaseQuality(reads, min = 20)
|
Arguments
reads |
(ShortRead object) Loaded reads from fastq. |
min |
(numeric) This is the minimum quality that we accept for every nucleotide. For example, if we have a sequence with nucleotides which have quality 50-50-50-50-10, and we set the minimum to 30, the whole sequence will be a bad sequence. The minimum is set to 0 by default. |
Value
(boolean) Logical vector with the valid rows as TRUE.
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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