April 5, 2016
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one more adjustment in response to the 'vals' -> 'filter' renaming in GenomicFeatures

Herve Pages authored on 05/04/2016 23:53:00
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adjustments in response to the vals -> filter renaming in GenomicFeatures

Herve Pages authored on 05/04/2016 22:55:27
March 12, 2016
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move Rsamtools to Depends to avoid masking of bamPaths()

Michael Lawrence authored on 12/03/2016 19:23:55
February 1, 2016
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stream past XS counts for indels (even when XS counting is disabled)

Michael Lawrence authored on 01/02/2016 20:11:05
January 29, 2016
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elementLengths was renamed -> elementNROWS in S4Vectors (new name reflects TRUE semantic, old name will be deprecated soon)

Herve Pages authored on 29/01/2016 01:22:03
December 7, 2015
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re-enable maintainer mode toggling in gmap

Michael Lawrence authored on 07/12/2015 19:55:43
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make seqinfo setting robust to missing seqlevels

Michael Lawrence authored on 07/12/2015 03:40:40
December 5, 2015
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fix single output case for GMAP

Michael Lawrence authored on 05/12/2015 15:00:00
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regenerate autotools stuff

Michael Lawrence authored on 05/12/2015 14:42:50
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re-add maintainer mode support to gstruct

Michael Lawrence authored on 05/12/2015 14:39:13
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disable maintainer mode for gsnap

Michael Lawrence authored on 05/12/2015 14:20:35
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So let's try to support gmapR again on Mac. See:

Herve Pages authored on 05/12/2015 00:34:38
December 3, 2015
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general cleanup and fixes, doc updates

Michael Lawrence authored on 03/12/2015 21:11:09
November 24, 2015
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add raw total count statistic to tallies (everything else now qual filtered)

Michael Lawrence authored on 24/11/2015 22:19:59
November 23, 2015
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add ability to call GMAP

Michael Lawrence authored on 23/11/2015 23:25:34