Add to the vignette a clarification about technical replicates:
Run: a unique number for all the MS runs (from 1 to the total number of raw files). It will be especially useful when having technical replicates. For example, in the table below, there are 2 technical replicates of the same biological replicate (Cal_33-1, technical replicates 1 and 2). A special case is SILAC experiments (H and L label are run simultaneously. See below to find out more)
Replace the table by this:
qx006145 L Cal_33 Cal_33-1 1
qx006146 L Cal_33 Cal_33-1 2
qx006148 L Cal_33 Cal_33-2 3
qx006151 L HSC6 HSC6-1 4
qx006152 L HSC6 HSC6-2 5
Add to the vignette a clarification about technical replicates:
Run: a unique number for all the MS runs (from 1 to the total number of raw files). It will be especially useful when having technical replicates. For example, in the table below, there are 2 technical replicates of the same biological replicate (Cal_33-1, technical replicates 1 and 2). A special case is SILAC experiments (H and L label are run simultaneously. See below to find out more)
Replace the table by this:
qx006145 L Cal_33 Cal_33-1 1 qx006146 L Cal_33 Cal_33-1 2 qx006148 L Cal_33 Cal_33-2 3 qx006151 L HSC6 HSC6-1 4 qx006152 L HSC6 HSC6-2 5