Bump to latest ipython-cluster-helper. Fixes #298
Bump to latest ipython-cluster-helper with torque fix
Add --strand-filter 1 to VarScan somatic options

This is done in order to filter variants with extremely high (>90%)
strand bias.
Fix Tophat inner distance calculation.

Read pairs  spanning exons cause outliers in the insert size
distribution. This uses the median and an estimate
of the standard deviation based on the median absolute
deviation which is more stable w.r.t outliers.
Update with RNA-seq changes.
Provide infrastructure to run caller-based ensemble combines from multiple inputs. Uses the bcbio.variation.recall toolkit. Still a work in progress
Merge branch 'master' of github.com:chapmanb/bcbio-nextgen
Merge pull request #310 from lbeltrame/add-strand-bias-varscan

Add --strand-filter 1 to VarScan somatic options
Fix race conditions in QC generation, handling partially completed results and simultaneous runs on the same file. Fixes #311