read.bibliospec {specL} | R Documentation |
This function reads a BiblioSpec generated file and returns a list of tandem mass specs (psm objects), peptide assignments, retention times, and modifications records. The type of the data structire which is returned is called psmSet.
read.bibliospec(file)
file |
the name of the BiblioSpec generated SQLite file. |
The function performs a SQL query on the SQLite files generated by
bibliospec using the RSQLite
package.
The function is required for generating spec libraries used
in a SWATH workflow.
BiblioSpec files are generated by using Skyline.
It returns a list which can be read by the genSwathIonLib
function and the protViz::peakplot
function.
Christian Panse, 2014, 2015
https://skyline.gs.washington.edu/labkey/project/home/software/Skyline/begin.view
https://skyline.gs.washington.edu/labkey/project/home/software/BiblioSpec/begin.view
?SQLite
read.bibliospec