Next Generation Sequencing (NGS) experiments produce millions of short sequences that, mapped to a reference genome, provide biological insights at genomic, transcriptomic and epigenomic level.
Nonetheless, a variable number of reads fails to correctly align to the reference. In most of the cases this failure is due to the low quality of the bases called during the sequencing, but very often this ‘misalignment’ is due to sequence differences between the reads and the corresponding genome.
Investigating the source of these reads is definitely important to better assess the quality of the whole experiment, and to look for possible downstream or upstream ‘contamination’ from exogenous nucleic acids.
DecontaMiner is a tool designed and developed for the detection and analysis of these contaminating sequences. DecontaMiner is aimed at help researchers in obtaining more information from the data, and, in particular, to check for microorganisms presence that can not only affect the reliability of the whole experiment, but also foster the evaluation of the samples and the conditions under an additional perspective
Please click on the following link to go to the download page. There you will find the first release of the software as a tar gzipped file.