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assembly releases, new software features, updates and
training seminars by email, subscribe to the
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25 Jan. 2010 - New Custom Track type: Binary Alignment/Map (BAM)
We are pleased to announce the availability of another new track type for
Custom Tracks: the Binary Alignment/Map
(BAM).
BAM is the compressed binary version of the
Sequence Alignment/Map (SAM)
format, a compact and index-able representation of nucleotide sequence
alignments. Many next-generation sequencing and analysis tools work with
SAM/BAM. For custom track display, the main advantage of indexed BAM over
PSL and other human-readable alignment formats is that only the portions
of the files needed to display a particular region are transferred to UCSC.
This makes it possible to display alignments from files that are so large
that the connection to UCSC would time out when attempting to upload the
whole file to UCSC. Both the BAM file and its associated index file remain
on your web-accessible server (http or ftp), not on the UCSC server.
UCSC temporarily caches the accessed portions of the files to speed up
interactive display.
13 Jan. 2010 - Lifespan of custom tracks within sessions:
Due to the popularity of UCSC
custom tracks
and
sessions,
we are running out of disk space for storing custom
tracks accessed within sessions. Although sessions
themselves are saved for one year, user-generated tracks
within sessions (including custom tracks) are saved for 48
hours, the typical period for other custom tracks. Until
now, because we have had space available on the server, we
have attempted to keep custom tracks alive for the lifetime
of the session.
Read more.
11 Jan. 2010 - Zebrafish release zv8 now available in Genome Browser:
The most recent zebrafish assembly -- zv8 (UCSC version
danRer6, Dec. 2008) -- is now available in the UCSC
Genome Browser. This assembly was produced by
the Wellcome Trust Sanger Institute, UK.
Read more.
14 Dec. 2009 - New job posting: Biological Data Technician:
The UCSC Genome Browser project is looking for a
bioinformatician, biologist, or software engineer with a
strong biology background to collect and import data
into the UCSC Genome Browser database and
website.
Read more.
7 Dec. 2009 - Human Genome Browser default
changing to hg19:
In conjunction with the release of the UCSC Genes and
Conservation tracks on the hg19 (GRCh37) human assembly,
we have changed the default human browser on our website
from hg18 to hg19.
Read more.
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