Category Archive: child-project

PorToL – PHRED Documentation

Program: phred Version: 0.020425.c Copyright (C) 1993-2002 by Phil Green and Brent Ewing. All rights reserved. This software is a beta-test version of the phred package. It should not be redistributed or used for any commercial purpose, including commercially funded sequencing, without written permission from the author and the University of Washington. This software is …

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PorToL – PHRAP Documentation

/***************************************************************************** # Copyright (C) 1994-1999 by Phil Green. # All rights reserved. # # This software is part of a beta-test version of the swat/cross_match/phrap # package. It should not be redistributed or # used for any commercial purpose, including commercially funded # sequencing, without written permission from the author and the # University of …

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Glossary of PorToL Processing Pipeline Terms

base call A process by which a program analyzes sequencer data to determine which base (A,C,T or G) is most likely the one which is present at a particular location in a sequence. The sequencer is an analog device which relies on chromatography, which is subject to interference from background noise, adjacent bases, and other …

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PorToL Lifecycle

Lifecycle of a PorToL Project Specimen The “Wet” Phase Collection The first step in sequencing a sponge specimen is to collect the specimen. Specimens are collected around the world and brought back to DNA sequencing labs (e.g. Smithsonian Institute). Sample Preparation Some portion of the sample is chosen for sequencing. This could be a particular gene, or …

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