- Efficient comparison of sets of intervals with NC-listsMatthias Zytnicki
URGI, INRA Versailles, Plant Biology and Breeding Division, 78026 Versailles Cedex, France
Bioinformatics 29:933-9. 2013..Fast genomic comparison algorithms are thus crucial for the analysis of the ever-expanding number of reads sequenced...
- S-MART, a software toolbox to aid RNA-Seq data analysisMatthias Zytnicki
URGI, INRA, Versailles, France
PLoS ONE 6:e25988. 2011..With this tool, biologists can easily perform most of the analyses on their computer for their RNA-Seq data, from the mapped data to the discovery of important loci...
- Mapping reads on a genomic sequence: an algorithmic overview and a practical comparative analysisSophie Schbath
INRA, UR1077 Unité Mathématique Informatique et Génome, Jouy en Josas, France
J Comput Biol 19:796-813. 2012..On each dataset, we quantified the capacity of the different tools to retrieve all the occurrences of the reads in the reference genome. Special attention was paid to reads uniquely reported and to reads with multiple hits...