logoContext: Produces a motif of coding start context
In riboSeqR: Analysis of sequencing data from ribosome profiling experiments
Description
Usage
Arguments
Value
Author(s)
Description
The findCDS function reports the immediate context of coding start. This
function uses the 'seqLogo' package to produce a motif of the contexts
reported.
Usage
1
logoContext(cds, ...)
Arguments
cds
A GRanges object containing a '$context' value which defines the 7
bases defining coding start context.
...
Other values to be passed to the seqLogo function.
Value
A matrix containing counts of the different bases observed at each
position of the 7-base context.
Author(s)
Thomas J. Hardcastle
riboSeqR documentation built on Nov. 8, 2020, 8:23 p.m.
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Description Usage Arguments Value Author(s)
Description
The findCDS function reports the immediate context of coding start. This function uses the 'seqLogo' package to produce a motif of the contexts reported.
Usage
1 | logoContext(cds, ...)
|
Arguments
cds |
A GRanges object containing a '$context' value which defines the 7 bases defining coding start context. |
... |
Other values to be passed to the seqLogo function. |
Value
A matrix containing counts of the different bases observed at each position of the 7-base context.
Author(s)
Thomas J. Hardcastle
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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