dist_tp: Get the genetic distance between two samples .
In jtmccr1/HIVEr: Analysis of transmission and intrahost iSNV data taken as part of the HIVE cohort

This function compares the frequencies of alleles found in two samples and calculates the L1 norm or manhattan distance

1	dist_tp(pairs, snv)

`pairs`	A vector of SPECID. These strings must be found in the SPECID column of the iSNV data frame
`snv`	A data frame of isnv calls from deepSNV with a SPECID column

the L1 norm

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# There  one shared iSNV here and one fixed difference the rest are the same.
print(small_isnv)
dist_tp(c("HS1595","HS1596"),small_isnv)

jtmccr1/HIVEr documentation built on May 29, 2019, 1:50 a.m.

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