oneChannelGUI         package:oneChannelGUI         R Documentation

_S_t_a_r_t_i_n_g _o_n_e_C_h_a_n_n_e_l_G_U_I _p_a_c_k_a_g_e

_D_e_s_c_r_i_p_t_i_o_n:

     Starting oneChannelGUI package. oneChannelGUI contains a set of
     functions extending the  capabilities of affylmGUI package

_U_s_a_g_e:

     AboutextendedaffylmGUI()
     AboutaffylmGUI()
     oneChannelGUI()
     oneChannelGUIHelp()
     maSigProHelp()
     siggenesHelp()
     oneChannelGUIHelp()
     initialize.extAffylmGUI()
     OpenExonandTargetsfiles()
     GOstatsHelp()
     NewLimmaFile()
     OpenLimmaFile()
     OpenALimmaFile(FileName)
     OpenAFile(FileName)
     OpenExonFile()
     OpenLargeFile()
     changeMenu()
     oneChannelGUI.start()
     libraryFilesDir()
     whichKindOfArray()
     intronicBg()
     ExportNormalizedExpressionValues1()
     ExportNormalizedExpressionValues()
     ExportfeatureNames()
     SaveAsLimmaFile()
     addAnnLib()
     OpenCDFandTargetsfiles()
     ComputeLinearModelFit()
     GetNormalizationMethod()
     NormalizeNow()
     ComputeContrasts()
     midasFilter()
     dabgFilter()
     largedatasetNorm()
     RankProdHelp()
     affyPLMHelp()
     genefilterHelp()
     pamrHelp()
     pdmclassHelp()
     sizepowerHelp()
     ssizeHelp()
     OpenAGeoFile(FileName)
     OpenGeoFile()
     OpenGeoFiles()
     recoverUnfiltered()
     delete.ML()
     affyPlotMA()
     changes()
     aptFolder()
     deleteLocalData()
     SetED()
     chooseEDir()
     .annotation(eset)

_A_r_g_u_m_e_n_t_s:

FileName: Internal argument not to be set by the user

    eset: Internal argument not to be set by the user

_D_e_t_a_i_l_s:

     This function launches a modify version of the Graphical User
     Interface by James Wettenhall  for the limma package by Gordon
     Smyth. The GUI uses Tk widgets (via the R TclTk interface by Peter
     Dalgaard) in order to provide a simple interface to various tools
     for quality control and statistical analysis of Affymetrix gene
     chips.

_A_u_t_h_o_r(_s):

     Raffaele A Calogero

_E_x_a_m_p_l_e_s:

     #  library(oneChannelGUI)
     ## To start the affylmGUI with the modifications
     #oneChannelGUI()

