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17 March 2015 - New Visualization Option for RepeatMasker
We are excited to announce the release of the new RepeatMasker Visualization track for the
hg38 and mm10 assemblies. This new RepeatMasker track displays detailed information that
includes the amount of unaligned repeat sequence and lines joining repeat fragments.
Additionally, repeats are now colored based on their repeat class. This new RepeatMasker
track incorporates a new details page that includes the detailed RepeatMasker output and
the raw alignment used to generate the final repeat annotation. You can read more about
this track on the description page for either
This track is the result of a collaboration between the
Institute for Systems Biology
and the UCSC Genome Browser. We would like to thank Robert Hubley, Arian Smit, Hiram
Clawson, and Matthew Speir for their efforts in creating this track.
03 March 2015 - Use UDR for Quick Sizable Downloads
The UCSC Genome Browser is pleased to share a download protocol to use when downloading
large sets of files from our download servers: UDR (UDT Enabled Rsync). UDR utilizes rsync
as the transport mechanism, but sends the data over the UDT protocol, which enables huge
amounts of data to be downloaded efficiently over long distances.
Protocols like http, ftp and rsync can have a problem in that the further
away the download source is from the user, the slower the speed becomes. Protocols like UDT/UDR
allow for many UDP packets to be sent in batch, thus allowing for much higher transmit speeds
over long distances. UDR will be especially useful for users who are downloading from places
that are far away from California. The US East Coast and the international community will likely
see much higher download speeds by using UDR rather than rsync, http or ftp.
26 February 2015 - New Training Video!
View it now on our
12 February 2015 - Blat Your Assembly Hub:
Assembly data hubs, track hubs that allow researchers to annotate genomes that are
not in the UCSC Genome Browser, can now use blat to quickly find DNA and protein
sequences in their unique assemblies.