6254a2f3273acb0889ba875ffab273f0099cea16
galt
Tue May 21 00:17:23 2019 -0700
Fixe problems found by htmlCheck validate and hgNearTest robot
diff --git src/hg/makeDb/trackDb/human/humMusL.html src/hg/makeDb/trackDb/human/humMusL.html
index 15e973b..cfd0e35 100644
--- src/hg/makeDb/trackDb/human/humMusL.html
+++ src/hg/makeDb/trackDb/human/humMusL.html
@@ -21,31 +21,31 @@
by scanning the sequence, sliding 5 bases at a time, and only those
windows with at least 15 aligned bases were kept. For each window,
a conservation score defined by
S = sqrt(n/m(1-m))(p-m)
was calculated, where n is the number of aligning bases in the
window, p is the percent identity between human and mouse for these
aligning bases, and m is the average percent identity for aligned
neutrally evolving bases in a larger region surrounding the 50 bp
window being scored. Neutral bases were taken from ancestral repeat
sequences, which are relics of transposons that were inserted before
the human-mouse split. To transform S into an L-score, the empirical
- cumulative distribution function CDF(S) = P(x < S)
+ cumulative distribution function CDF(S) = P(x < S)
is computed from the scores of all windows genome-wide, and
the L-score is defined as
L = -log_10(1 - CDF(S)).
The L-score
provides a frequentist confidence assessment. A Bayesian
calculation of the probability that a window is under
selection can also be made using a mixture decomposition of
the empirical density of the scores for all windows
genome-wide into a neutral and a selected component. Details
are given in a manuscript in preparation. The results are