mapComp {InPAS} | R Documentation

## Calculate weights for mappability-base coverage correction

### Description

mappability is calculated by using GEM with the following command lines: PATH=$PATH:~/bin/GEM-binaries-Linux-x86_64-core_i3-20130406-045632/bin ./gem-indexer -i genome.fa -o mm10.index.gem ./gem-mappability -I mm10.index.gem.gem -l 100 -o mm10.mappability ./gem-2-wig -I mm10.index.gem.gem -i mm10.mappability -o mm10.mappability.wig

### Usage

    mapComp(mi)

### Arguments

`mi` | A numeric vector of mappability along per chromosome/scaffold

### Details

Calculate weights for mappability-base coverage correction

### Value

A numeric vector of weights for mappability-based coverage correction

### Author(s)

Jianhong Ou

### References

Derrien et al. Fast computation and applications of genome mappability. PLoS One. 2012;7(1):e30377. doi: 10.1371/journal.pone.0030377.

[Package InPAS version 2.2.0 Index]