View source: R/copy_validate.R
copy_validate | R Documentation |
A tool to help identify incorrectly assembled chimeric sequences.
copy_validate(filename, copy_number, read_length, verbose = 1)
filename |
A DNA alignment in fasta format that contains sequences of two or more gene copies (e.g. results from "copy_assemble"). |
copy_number |
An integer (e.g. 2,3, or 4) giving the number of gene copies in the input file. |
read_length |
An integer (e.g. 250, or 300) giving the read length of your Next-generation Sequencing data. |
verbose |
Turn on (verbose=1; default) or turn off (verbose=0) the output. |
A histogram in pdf format showing the relationships between the physical distance between neighboring variable sites and read length.
## Not run: copy_validate("inst/extdata/Final_two_copies.fasta",2,300,1) ## End(Not run)
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