LOX (Version 1.8; February 5, 2012)

LOX is a software package that employs Markov Chain Monte Carlo to estimate level of 
expression from census sequencing data sets with multiple treatments or samples. Based 
on deep sequencing expression data, LOX integrates over all sequence count tallies to 
provide relative expression and confidence intervals among treatments. Unlike many 
software packages, it features a linear gene bias model that facilitates integration of 
diverse census sequencing data, e.g. when census counts have been produced using diverse 
experimental methodologies.

LOX is distributed as open-source software and licensed under the GNU General Public 
License (Version 3; http://www.gnu.org/licenses/gpl.txt), in the hope that it will 
be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY 
or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

LOX is freely available for academic use only at http://www.yale.edu/townsend/software.html.
Commercial use of LOX requires a special contract.

bin/: executables
doc/: documentation
example/: an example of input file and its result file
how to generate input file/: a pipeline for generating input file from raw sequence reads and genome features
src/: source codes

Please send bugs or advice to Zhang Zhang at zhangzhang@big.ac.cn or zhangzhang.cn@gmail.com.

Zhang Zhang, Ph.D.

Beijing Institute of Genomics, Chinese Academy of Sciences
No.7 Beitucheng West Road
Chaoyang District, Beijing 100029
China
