HMM code and input files

Contains data and code to run an HMM optimisation for Hermes insertion data.
Contains:
The predictors of insertion density:predictors.2016-10-06.tar.gzincludes:insertion motif similarity score (IMSS)nucleosome density scores
hidden Markov Model R code
transposon-hmm-7-cross-validation.R
sample config filelog.III.5A.tr-even.config.r#the code is run like so:cat transposon-hmm-7-cross-validation.R | \R --slave --args config.r input.Rda
We also include:
sample input files: all-log.and-predictors.2016-10-06.txt.Rda

Sample output files:
log.all-model5A.hmmresult.table.Rda

Hermes-containing read mapping scores:mapping.scores.txt.gz