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Pro Directory comparisons
AraxisMerge supports comparing different directories with each other.
Pro Three way merges
AraxisMerge supports three way merges.
Pro Point and click merging
AraxisMerge has a feature which is very helpful especially for beginners. By clicking on different parts of a text file you can select all the parts to added in a final merged file. The comparison display also updates real-time as the merge happens.
Pro Beautiful interface
Pro Works great on large files
AraxisMerge is not free and it's quite expensive:
$129 Standard and $269 Professional