To remove any overlap from repeat elements, the Galaxy Database Merge tool was used to concatenate overlapping repeat regions into single intervals.
The screening dual-frame design attempts to remove any overlap units usually by screening for telephone ownership prior to conducting the survey and then only interviewing mobile-only phone users from the mobile frame.
The miRror-Suite database collects the information from all 18 MDBs (for humans) after removing any overlap among them.
We removed any overlap between training and test sets using CD-HIT (Fu et al., 2012), leaving the positive set size to 86 entries.
In order to avoid bias in our favor, we have removed any regions overlapping the training set, decreasing the size of the larger training set to 1480 positive and 1824 negative samples.
The complete model was finally energy minimized to remove any sterical overlap employing the Amber package [51].
The final filter was applied mapping all the resulting transcripts onto the human genome (the best annotated mammalian genome), and removing any transcript strongly overlapping with a protein-coding gene.
Finally, we remove spatially overlapping detections at the same temporal location, using non-maximum suppression.
All filler particles are generated simultaneously within the specimen domain; subsequently their position is iteratively perturbed to remove particle overlapping.
The 2.4 million clean unmapped reads next underwent a second round of mapping, again with MAQ, to remove sequences overlapping with the known flanking upstream BAC clones.
