Version 1.0.1

This release brings a few significant changes to FindFlu.

1. Now, a single consensus sequence is generated for each fragment instead of a separate consensus sequence for each end of the fragment. The single consensus sequence is generated by merging the fragment end sequences together. If the fragment end sequences do not overlap each other, FindFlu inserts the appropriate number of Ns (based on the distance between the fragment ends and the number of positions sequenced at each end of the fragment).
2. Best-matching reference sequences are now based on the top n-ranked combined bitscores rather than just the top ranked combined bitscore.
3. FindFlu no longer analyzes and reports host/country/H5 clade annotations for the best-matching reference sequences. I am working on more elegant ways to characterize potential host and geographic range and to determine lineage/clade membership. These will be implemented as separate tools that can be applied downstream of FindFlu.

Version 0.0.8

First stable release