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Therefore, the total number of reads generated in a single experiment is typically normalized by converting counts to fragments, reads, or counts per million mapped reads (FPM, RPM, or CPM). The difference between RPM and FPM was historically derived during the evolution from single-end sequencing of fragments to paired-end sequencing.
Sequence coverage (or depth) is the number of unique reads that include a given nucleotide in the reconstructed sequence. [1] [2] Deep sequencing refers to the general concept of aiming for high number of unique reads of each region of a sequence. [3] Physical coverage, the cumulative length of reads or read pairs expressed as a multiple of ...
Sequencing technologies vary in the length of reads produced. Reads of length 20-40 base pairs (bp) are referred to as ultra-short. [2] Typical sequencers produce read lengths in the range of 100-500 bp. [3] However, Pacific Biosciences platforms produce read lengths of approximately 1500 bp. [4] Read length is a factor which can affect the results of biological studies. [5]
Genome size ranges (in base pairs) of various life forms. Genome size is the total amount of DNA contained within one copy of a single complete genome.It is typically measured in terms of mass in picograms (trillionths or 10 −12 of a gram, abbreviated pg) or less frequently in daltons, or as the total number of nucleotide base pairs, usually in megabases (millions of base pairs, abbreviated ...
Metric prefixes; Text Symbol Factor or; yotta Y 10 24: 1 000 000 000 000 000 000 000 000: zetta Z 10 21: 1 000 000 000 000 000 000 000: exa E 10 18: 1 000 000 000 000 000 000: peta P 10 15: 1 000 000 000 000 000: tera T
For example, the algorithm QualComp [9] performs lossy compression with a rate (number of bits per quality value) specified by the user. Based on rate-distortion theory results, it allocates the number of bits so as to minimize the MSE (mean squared error) between the original (uncompressed) and the reconstructed (after compression) quality values.
For example, 10 miles per hour can be converted to metres per second by using a sequence of conversion factors as shown below: = . Each conversion factor is chosen based on the relationship between one of the original units and one of the desired units (or some intermediary unit), before being rearranged to create a factor that cancels out the ...
In the context of computing, the metric prefixes are often intended to mean something other than their normal meaning. For example, a kilobyte is actually 1024 bytes even though the standard meaning of kilo is 1000. And, mega normally means one million, but in computing is often used to mean 2 20 = 1 048 576. The table below illustrates the ...