fromer 2b0dc8625c Updated RBP theoretical model as per Mark's insights regarding the correct understanding of insert sizes being calculated post-hoc from the distance between read lengths. The correct way to think of it is: 1) There's a fragment of length F. 2) Each of it's two ends are read for L bases. 3) The insert size = i = F - 2 * L, after the fragment's assumed identity is determined by mapping the read mates to a reference sequence. Therefore, the external user-defined distribution is on the FRAGMENT SIZES ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4850 348d0f76-0448-11de-a6fe-93d51630548a		2010-12-16 01:45:20 +00:00
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RBP_theoretical.R	Updated RBP theoretical model as per Mark's insights regarding the correct understanding of insert sizes being calculated post-hoc from the distance between read lengths. The correct way to think of it is: 1) There's a fragment of length F. 2) Each of it's two ends are read for L bases. 3) The insert size = i = F - 2 * L, after the fragment's assumed identity is determined by mapping the read mates to a reference sequence. Therefore, the external user-defined distribution is on the FRAGMENT SIZES	2010-12-16 01:45:20 +00:00
calcPhasingProbsForWindowDistances.R	Calculate the phasing probabilities for particular intra-het distances	2010-12-14 18:44:59 +00:00