User`s manual

Alpha Innotech User’s Manual, version 4
5-54
Profile and Data window. These values result from the gel smile/curvature rather
than the absolute vertical Rf value. Adjusted Rf is calculated based on the
addition of M.W. markers and/or the Rf Curve lines which serve to correct the
Generic Rf values for gel smiling.
Generic Rf Matching: When Generic Rf Matching is selected the software will
match bands based on the data values in the Rf column of the Profile and Data
window. These values are the relative Rf calculated vertically where the origin of
the lane is set to zero and the lane front is set to 1. Gel smiling or curvature is not
adjusted for in this selection.
Matching Reference
Select a lane to serve as the matching reference. It is advised that you choose a lane that
either contains most of the bands of interest or spans the range of bands of interest while
also containing many of the bands of interest. This will reduce the amount of effort
required for post match edits.
Matching Tolerance
Enter a value to be used as the matching tolerance. The tolerance is converted into the
amount of displacement two bands may have and still be matched by the software. The
larger the tolerance value the larger the range the software will use for matching. The
valid range is 0-10%. A value of 1-5% typically works best. A lower percentage works
well for tightly spaced bands.
Auto Match
After selecting a matching metric, reference, and tolerance click the Auto Match button
for the software to perform auto matching. When matching has been completed the
Display Results and Generate Dendrogram buttons will become active. Refer to the
appropriate sections below for a description of Similarity Results and Dendrogram
creation.
Editing Match Results
Following Automatic band matching the user may need to manually edit or correct some
matches. The tools under Manual Matching can be used for this purpose. Refer to the
section below on Manual Matching for a description of each tool.