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When analyzing an
design using composite interval mapping,
QTL Cartographer reports 21 columns of information for each position in the walk
along the chromosomes. Before enumerating those statistics, it's
useful to point out that there are four hypotheses being examined at
each position:
Many of the 21 columns in the output correspond to
comparisons among these hypotheses or to estimates of additive and
dominance effects under a particular hypothesis. Here's what each
column in the output corresponds to:
- Chromosome on which the test position is located.
- Left flanking marker associated with the test position.
- Absolute position of the test position from the left telomere of
this chromosome (in Morgans).
- Likelihood-ratio test statistic for
versus
.
- Likelihood-ratio test statistic for
versus
.
- Likelihood-ratio test statistic for
versus
.
- Estimate of the additive allelic effect,
, under
.
- Estimate of the additive allelic effect,
, under
.
- Estimate of the dominance effect,
, under
.
- Estimate of the dominance effect,
, under
.
- Likelihood-ratio test statistic for
versus
.
- Likelihood-ratio test statistic for
versus
.
for
versus
- The extent to which
reduces the residual variance,5 relative to the total variance.6
for
versus
- The extent to which
reduces the residual variance, relative to the total
variance.
for
versus
- The extent to which
reduces the residual variance, relative to the total
variance.
for
versus
- The extent to which
reduces the total variance.7
for
versus
- The extent to which
reduces the total variance.
for
versus
- The extent to which
reduces the total variance.
- A test statistic,
, for normality of the residuals under
.8
- A test statistic,
, for normality of the residuals under
.
- A test statistic,
, for normality of the residuals under
.
Next: Creative Commons License
Up: Mapping Quantitative Trait Loci
Previous: Running an analysis
Kent Holsinger
2008-11-02