When converting from colorspace to basespace, if you reach an error (no color, aka "4" or "."), you have 4 possibilities for the rest of the read. How do you determine the correct one?
Example:
Colorspace T000.00
Is basespace TTTTN followed by AA, CC, GG or TT
Which is correct? If you have a sequencing error early in the read, such as position 1 or 2 it goes in the garbage?
Example:
Colorspace T000.00
Is basespace TTTTN followed by AA, CC, GG or TT
Which is correct? If you have a sequencing error early in the read, such as position 1 or 2 it goes in the garbage?
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