BFAST mapping quality scores

[nora]

Dear all,

Can anybody tell me what the BFAST mapping scores stand for? I know they go from 0-255 but I wonder how they are computed; and do they have anything to do with the probability of a false positive?

[nilshomer]

Dear all,

Can anybody tell me what the BFAST mapping scores stand for? I know they go from 0-255 but I wonder how they are computed; and do they have anything to do with the probability of a false positive?

See the following link for an discussion of how BFAST calculates mapping quality:
https://sourceforge.net/apps/mediawi...apping_Quality

See this link (check the supplementary materials) behind the mathematical discussion behind mapping quality:
http://genome.cshlp.org/content/18/11/1851.abstract

[nora]

Thanks so much!