Question: GATK BaseRecalibration report
0
gravatar for stephenn
6.4 years ago by
stephenn0
stephenn0 wrote:

hi everyone

I use GATK to do snp call. But I don't understand the BaseRecalibration report as follows . And i really don't known the word 'Observations' 'Errors' stand for.

Thanks in advance

RaedGroup            R11               R11               R11

EventType            M                  I                 D

EmpiricalQuality     15.0              28.0               26.0

EstimatedQReported    32               45                  45

Observations         1.23e+08     1.23e+08               1.23e+08

   Errors            4.35e+06      2.15E+05             4.28e+05   

 

blast snp • 1.2k views
ADD COMMENTlink modified 6.4 years ago by Biostar ♦♦ 20 • written 6.4 years ago by stephenn0
0
gravatar for hosgroupcp2
6.4 years ago by
hosgroupcp20 wrote:

me to :(

i really don't known the word 'Observations' 'Errors' stand for.

Thanks in advance

RaedGroup            R11               R11               R11

EventType            M                  I                 D

EmpiricalQuality     15.0              28.0               26.0

EstimatedQReported    32               45                  45

Observations         1.23e+08     1.23e+08               1.23e+08

   Errors            4.35e+06      2.15E+05             4.28e+05   

ADD COMMENTlink written 6.4 years ago by hosgroupcp20
0
gravatar for hosgroupcp2
6.4 years ago by
hosgroupcp20 wrote:

Observational error (or measurement error) is the difference between a measured value of quantity and its true value. In statistics, an error is not a "mistake". Variability is an inherent part of things being measured and of the measurement process.

wiki

ADD COMMENTlink written 6.4 years ago by hosgroupcp20
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