The raw sequencing reads were filtered for adapter contamination, low quality scores, and we also excluded reads in which more than 10% of bases were unknown.
John Krasinski reunited the pair on Friday as part of a Film Independent and New York Times series of "live reads", in which actors read the screenplay of a film to a live audience.
This creates blocking (in the case of reads) in which the CPU waits for the data and doesn't issue more I/Os as well as doesn't do any meaningful work while waiting for the data [5, 8, 10].
Furthermore, the reads of D4* have been quality filtered, so that we only retained reads in which all bases have a high quality score.
Next-generation sequencers now have the capability to carry out paired-end reads, in which the two ends of a DNA fragment are sequenced and the two end sequences are known to belong to the same fragment.
Discard reads in which N or polyA sequence constitutes more than 10% of bases.
a HQ reads high-quality reads in which each base has a Q-score ≥ 20.
Pindel uses a portion of paired end reads in which one of the pair is unmapped.
Paired-end reads in which both ends were mapping to the same strand were also retrieved, as well as reads in which the second mate was mapping upstream the first mate, being candidates to represent putative circular RNAs.
Clean reads were obtained after removing reads that contained adaptor sequences, reads in which more than 10% of the bases were unknown, and reads in which more than 50% of the quality values of the bases were less than 5.
Raw reads were saved as.fastq files, and filtered to remove adaptor sequences, reads in which the proportion of non-called bases was > 10% and reads in which low quality (≤ 5) bases represented > 50% of the read.
