#1: [Feature request] Count orphans (unmapped mates) and splits (mate mapped to different chromosome) :: hub.darcs.net

Calculate statistics for BAM short read alignment files (http://blog.malde.org/posts/bamstats.html)

#1[Feature request] Count orphans (unmapped mates) and splits (mate mapped to different chromosome)

This is useful to estimate the value of a read library for scaffolding.