AlleleProfileR.parsecodingframe: Profile the codingframe sequence
In abruyneel/AlleleProfileR: Genome editing strategy agnostic variant identification and profiling tool
Description
Usage
Arguments
Value
Author(s)
View source: R/functions_main.R
Description
This function profiles the coding sequence for variants
Usage
1
AlleleProfileR.parsecodingframe(obj, gene, index, fs = F)
Arguments
obj
Row in the BAM datatable, a sequencing read.
gene
Gene information vector
index
Path to the .fa file containing the reference genome.
fs
If TRUE, a frameshift was already detected in previous analysis steps.
Value
List with elements: output_start, output_coding, output_fs, output_stop, output_pstop, length, output_wt, output_cryptic, seq, output_cryptic_start, output_cryptic_stop
Author(s)
Arne Bruyneel
abruyneel/AlleleProfileR documentation built on June 12, 2020, 2:47 p.m.
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Description Usage Arguments Value Author(s)
View source: R/functions_main.R
Description
This function profiles the coding sequence for variants
Usage
1 | AlleleProfileR.parsecodingframe(obj, gene, index, fs = F)
|
Arguments
obj |
Row in the BAM datatable, a sequencing read. |
gene |
Gene information vector |
index |
Path to the .fa file containing the reference genome. |
fs |
If TRUE, a frameshift was already detected in previous analysis steps. |
Value
List with elements: output_start, output_coding, output_fs, output_stop, output_pstop, length, output_wt, output_cryptic, seq, output_cryptic_start, output_cryptic_stop
Author(s)
Arne Bruyneel
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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