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Ran 03 Apr 2017 06:36PM UTC

Files 18

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Committed 03 Apr 2017 06:22PM UTC coverage: 71.663% (+3.3%) from 68.318%

Job # 43.1

Build Type

push

travis-ci

Committed by

rcavalcante

Commit Message

Streamline preliminary steps in chipenrich()

* In preparation for breaking out broadenrich and polyenrich methods into their own functions, we want the internal code in chipenrich() to be as modular as possible.
* New setup_locusdef() function is called within chipenrich() and uses parameters from it to either construct a user-defined locus definition, or load one from chipenrich.data.
* New setup_genesets() function is called within chipenrich() and uses parameters from it to either read a user-defined gene set file or load them from chipenrich.data.
* New setup_mappa() function does the same as the previous two functions. It checks for proper overlap with locus definitions.
* Streamlined the mappability interface in chipenrich down to one parameter that is either NULL, a file path for custom mappability, or one of the valid read lengths in supported_read_lengths().
* Various documentation and vignette changes to go along with this.

Run Details

918 of 1281 relevant lines covered (71.66%)

11.13 hits per line

sartorlab / chipenrich / 43 / 1
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master: 80%

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master: 80%

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