search

ibest / ARC

Assembly by Reduced Complexity (ARC)
Apache License 2.0
41 stars 5 forks source link

Generate mapping statistics #16

Closed samhunter closed 11 years ago

samhunter commented 11 years ago

Build a table during the final finishing stage (or write to it at each iteration) which is formatted like:

iteration, target1, target2, .... targetn 1 12, 15, ......, N

And contains counts for the number of reads mapped at that iteration

samhunter commented 11 years ago

This has been implemented. A "mappingstats.tsv" file is now created within each finished* folder. This file is TAB separated, and has columns: Sample Target Iteration Reads

A simple R script could then be used to plot these, i.e.: library(lattice) dat = read.table("mapping_stats.tsv", header=T) xyplot(Reads~Iteration, groups=Target, dat, type='o')