http://www.cureffi.org/2012/12/11/how-pcr-duplicates-arise-in-next-generation-sequencing/ WebCounting histogram of number of positions a read maps to using pysam: def get_reads_hist(bam): bam = pysam.AlignmentFile(bam, 'rb') counts = Counter() for query …

Duplication - Genome.gov

WebMost reads in an RNA-seq library should have a low number of exact duplicates. Samples which have many reads with many duplicates (a large area under the curve) may be … WebOct 21, 2016 · Here we present the tool dupRadar, which provides an easy means to distinguish the fraction of reads originating in natural duplication due to high expression … cumberland nc gis

Understanding Data Deduplication Microsoft Learn

http://www.cureffi.org/2012/12/11/how-pcr-duplicates-arise-in-next-generation-sequencing/ WebI recommend optical duplicate removal for all HiSeq platforms, for any kind of project in which you expect high library complexity (such as WGS). By optical duplicate, I mean removal of duplicates with very close coordinates on the flow cell. And by duplicate removal, I mean removing all duplicate copies except one. WebJul 25, 2016 · PCR duplicates are sequence reads that result from sequencing two or more copies of the exact same DNA fragment, which, at worst, may contain erroneous mutations introduced during PCR amplification, or, at the very least, make the occurrence of the allele (s) sequenced in duplicates appear proportionately more often than it should compared to … east street cafe