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Further, for efficient mapping of SOLiD data to large reference genomes (since runtime will scale in a roughly linear way with both read number and reference genome size), SOCS can be implemented on a cluster we have mapped a 32 million read data set to the complete human genome (Build 36.3) at a tolerance of four mismatches in ∼17 h on an eight node (64 core) cluster.
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One thousand simulations were run, and sensitivity was measured by determining if both edges of the CNA call matched the seeded CNA with a tolerance of one bin size.
A mismatch tolerance of five, for instance, yields 24.5% more usable data than a tolerance of three, and a mismatch tolerance of eight yields 65.8% more data (data not shown).
In the bioinformatics analysis, we found that a tolerance of three mismatches in the alignments achieved a good balance between performance and accuracy.
The program supports multithreading, and is able to use multiple processors efficiently (mapping at a tolerance of five mismatches runs ∼3.6× faster with four threads than with a single thread).
This stability is illustrated by atomic clocks which are accurate to a tolerance of one second every 1.7 million years.
Using miRExpress known human miRNAs were identified from miRBase Release 19 with an alignment identity of 1% a tolerance range of four and a similarity threshold of 0.8 in the analysis.
It is now possible for scientists to custom-design lubricant molecules for different needs, down to a tolerance of one or two layers of molecules.
The tightly spaced chairs necessitate a certain agility from the waitstaff, or at least a tolerance of thrown elbows; one diner's apology for leaning back into a waitress met with a breezy "I'm used to it".
Reads were mapped to the unmasked human reference genome (NCBIv36, hg18) using the Eland alignment tool (Illumina), with a tolerance of up to two mismatches per read sequence.
The mice were classified as "able" or "unable" based on their ability to walk on the rotating bar for 1 min, with a tolerance of up to three falls [ 33].
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com