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A tool or service or a pipeline of tools is needed to resolve this question.
The most common and popular manner in which this is achieved is through the Phred [ 18, 19] PHRAP [ 20] CONSED [ 21] pipeline of tools (all of which originate from the University of Washington).
Hopefully, these collective efforts will result in a more robust pipeline of tools that can overcome the translational challenges, and push the agenda towards the goal of TB elimination.
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Pipelines of tools are often assembled to accomplish a greater goal like identifying and annotating protein protein interaction events.
The core of the pipeline consists of tools that search for sequence and fold similarity, including the sequence comparison programs WU-BLAST [12] and PSI-BLAST [13], and the threading program 123D [14] [14].
As a result, a large proportion of bioinformatics work involves the chaperoning of data from a variety of sources through a pipeline of analysis tools.
However, the concept of novel isoenzyme discovery from the large bulk of sequences generated by next generation sequencing (NGS) technologies needs a full pipeline of efficient tools.
Using CycADS, all our databases have also more external links in the gene-specific page than a version generated with the straight upload pipeline of Pathway Tools.
Ideally one should have a list of every known variant contained in a sample so that when a pipeline of analysis tools is run, you can test it to know with certainty that it is performing correctly.
What Gordon has built is a causality pipeline – a set of tools and techniques that, he hopes, will more conclusively tell us how our microbes affect our health, and take us from guesswork and speculation to actual answers.
We presented the Bacterial Proteogenomic Pipeline, a set of tools for proteogenomics analyses with emphasize on the visualization of results, which runs on current desktop computers and allows an operating system independent execution.
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