November, 2004 changes to Cartwheel/FamilyRelationsII
Here's a rough list of the most recent changes to Cartwheel and
Note that you'll need to download the latest version of FRII to continue using Cartwheel; your older
versions will no longer work.
- Cartwheel can now run
LAGAN alignments, thus mimicking
some of the functionality of PipMaker and VISTA, respectively. Pairwise
VISTA comparisons can also be uploaded to the server but cannot be
You can see these new options on the normal pairwise comparison page
where you would e.g. set up a seqcomp.
- You can zoom into the pairwise alignments for BLAST, blastz, and
Previously this zoom view was only supported for seqcomp comparisons.
- You can see reports on individual BLAST matches against a database,
so that you can find out exactly what proteins or nucleotide sequences
match to a particular location.
This can be seen in "single view" mode, for new analyses;
right-click (or ctrl-click, on Macs) on the sequence lines and select
"single view". Then click on the feature(s) you're interested in.
(Yes, the "single-view" option on the menus is new, too.)
- A fair amount of work was done to make the user interface more
consistent, prettier, etc.
- A number of memory problems were fixed so FRII should crash less
Many of these changes are pretty significant and the functionality may
be a bit fragile. Please let me know if
you use the new features and run into problems. I'm always open to
suggestions or comments, too!