readQpcr              package:qpcrNorm              R Documentation

_D_a_t_a _I_n_p_u_t _F_u_n_c_t_i_o_n _f_o_r _a _S_i_n_g_l_e _q_P_C_R _E_x_p_e_r_i_m_e_n_t.

_D_e_s_c_r_i_p_t_i_o_n:

     This function reads in data from a single qPCR experiment. The
     text file must have the following structure: 
      1st column = names denoting genes or primer pairs 
      2nd column = plate index of each gene or primer pair 
      remaining columns = (replicate) Ct values. 
      Note: other annotation fields may be added after the Ct value
     columns. 

_U_s_a_g_e:

     readQpcr(fileName, header = TRUE, qc = FALSE, quote = "\"", dec = ".", fill = TRUE, comment.char = "", ...)

_A_r_g_u_m_e_n_t_s:

fileName: Character string. 

  header: Logical value, TRUE if the file contains the names of the
          variables as its first line. 

      qc: Logical value, TRUE if a QC filter 'ctQc' should be applied
          to the data. 
           If qc = F, the replicate Ct values will be averaged. 

   quote: Set of quoting characters. To disable quoting, set quote =
          "". See 'scan' for behaviour on quotes embedded in quotes. 

     dec: Character used for decimal points. 

    fill: Logical value, TRUE if in case rows have unequal length,
          blank fields are implicitly added. See 'read.table'. 

comment.char: Character vector of length one containing a single
          character or an empty string. Use "" to turn off the
          interpretation of comments altogether.  

     ...: further arguments to be passed to 'read.table'. 

_D_e_t_a_i_l_s:

     Currently fields appearing after the Ct value columns are not
     associated with the output of this function. Note: the majority of
     arguments to readQpcr are identical to those supplied to
     read.table. These have been included to  give the user greater
     control over data input, should the data deviate from a standard
     tab-delimited file structure.  For a standard tab-delimited text
     file, specifying the 'fileName' should be sufficient.

_V_a_l_u_e:

     A 'qpcrBatch' object.

_A_u_t_h_o_r(_s):

     Jess Mar jess@jimmy.harvard.edu

_S_e_e _A_l_s_o:

     'readQpcrBatch', 'ctQc'

_E_x_a_m_p_l_e_s:

      
             ## onerun.data <- readQpcr("singleQpcrRun.txt")

