[Debian-med-packaging] Bug#861721: ITP: e-mem -- Efficient computation of Maximal Exact Matches for very large genomes

Andreas Tille tille at debian.org
Wed May 3 08:00:12 UTC 2017

Package: wnpp
Severity: wishlist
Owner: Andreas Tille <tille at debian.org>

* Package name    : e-mem
  Version         : 0.0+20160706
  Upstream Author : Nilesh Khiste, Lucian Ilie
* URL             : http://www.csd.uwo.ca/~ilie/E-MEM/
* License         : GPL
  Programming Lang: C++
  Description     : Efficient computation of Maximal Exact Matches for very large genomes
 E-MEM enables efficient computation of Maximal Exact Matches (MEMs) that
 does not use full text indexes. The algorithm uses much less space and
 is highly amenable to parallelization. It can compute all MEMs of
 minimum length 100 between the whole human and mouse genomes on a 12
 core machine in 10 min and 2 GB of memory; the required memory can be as
 low as 600 MB. It can run efficiently genomes of any size. Extensive
 testing and comparison with currently best algorithms is provided.
 Mummer has many different scripts where one of the key program is MEM
 computation. In all the scripts, the MEM computation program can be
 replaced with e-mem with ease for better performance.

Remark: I wonder whether the package name is not to generic but do not
see a really strong reason to rename the package.

The package will be maintained by the Debian Med team at

More information about the Debian-med-packaging mailing list