In the table below (and the nomenclature used in the sentence above), it should be understood that the project name precedes any hyphen (-) or period (.) used at the beginning of file and folder names.
|File Suffix or Extension||Description|
|info||The files -[templateID].insertion2 and -[templateID].sV_Edges.txt both contain structural variation information used in SeqMan Pro reports.|
|bamToSQD.script||For converting the assembly to .sqd format.|
|pairScheme.info||(internal use only)|
|results.txt|| Here are some statistics of interest from the results.txt file:
* templateCoverage% – The percentage of the length of the template that is covered by one or more reads.
* medianCoverage – The average depth for regions that with nonzero coverage.
|The following files instruct SeqMan NGen to convert unassembled reads into a separate SQD project:|
|batchUnassembled||A UNIX executable file for de novo assembly of unassembled reads with v. and vi.|
|batchUnassembled.table.txt||A table of values for running an SNG assembly of the missing .fas reads against the template sequence.|
|batchUnassembled.template.script||The SNG script containing variables that are specified by the batchMissing.table.txt.|
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