report {ShortRead} | R Documentation |
This generic function summarizes results from evaluation of
qa
into a report. Available report formats vary
depending on the data analysed.
report(x, ..., dest=tempfile(), type="html")
x |
An object returned by qa , usually derived from
class .QA |
... |
Additional arguments used by specific methods. See specific methods for details. |
dest |
The output destination for the final report. For
type="html" this is a directory; for (deprecated)
type="pdf" this is a file. |
type |
A text string defining the type of report; available
report types depend on the type of object x ; usually this is
“html”. |
The following methods are defined:
x="BowtieQA", ..., dest=tempfile(), type="html"
BowtieQA
.x="FastqQA", ..., dest=tempfile(), type="html"
FastqQA
.
x="MAQMapQA", ..., dest=tempfile(), type="html"
MAQMapQA
.
x="SolexaExportQA", ..., dest=tempfile(), type="html"
SolexaExportQA
.
x="SolexaExportQA", ..., dest=tempfile(), type="pdf"
SolexaExportQA
.
x="SolexaPath", ..., dest=tempfile(), type="html"
_export.txt
files in the analysisPath
directory of x
to create a
SolexaExportQA
instance.
x="SolexaPath", ..., dest=tempfile(), type="pdf"
_export.txt
files in the analysisPath
directory of
x
to create a SolexaExportQA
instance.
x="ANY", ..., dest=tempfile(), type="ANY"
This function is invoked for its side effect; the return value is the name of the directory or file where the report was created.
Martin Morgan <mtmorgan@fhcrc.org>
showMethods("report")