-
Recent Posts
Archives
- August 2014
- May 2014
- May 2013
- April 2013
- March 2013
- January 2013
- December 2012
- November 2012
- October 2012
- September 2012
- August 2012
- July 2012
- May 2012
- April 2012
- March 2012
- February 2012
- January 2012
- December 2011
- November 2011
- October 2011
- September 2011
- August 2011
- July 2011
- June 2011
- May 2011
- April 2011
- March 2011
- February 2011
- January 2011
- December 2010
Categories
Meta
Monthly Archives: June 2011
PacBio/Illumina gap patching in ALLPATHS-LG now faster
As of revision 37655, the algorithm that computes the consensus of PacBio reads that patch a gap between ‘Illumina’ contigs is now ~100 times faster. For bacterial genomes it was taking several hours. The speedup was obtained by replacing an … Continue reading
Posted in Release
Leave a comment
Better handling of asymmetric library distributions
The distribution of jumping library fragment (“insert”) sizes can be far from Gaussian. Despite this, assemblers often model these distributions as Gaussian, leading to errors and inaccuracies. As of revision 37618, ALLPATHS-LG calculates the actual pair separation distribution for all libraries … Continue reading
Posted in Release
Leave a comment
Need Help? Maybe the answer is in our FAQ…
We get many questions from users, but a few keep recurring again and again. We’ve created an FAQ containing answers to these common questions, so perhaps the solution to your particular problem can be already be found here…
Posted in Misc
Leave a comment
Ferret assembly released
The ALLPATHS-LG assembly of female Ferret (Mustela putorius furo) is now available via NCBI and the Broad Institute ftp site. The basic statistics and location are given below: Contig N50 (kb) Scaffold N50 (Mb) NCBI Accession # Broad FTP 45 9.1 AEYP00000000 MusPutFur1.0 Please read … Continue reading
Posted in Assemblies
Leave a comment