November 23, 2015
View ead94b3

add ability to call GMAP

Michael Lawrence authored on 23/11/2015 23:25:34
October 28, 2015
View 8418591

resurrect improvements that we reverted before the April release, expect breakage for a while

Michael Lawrence authored on 28/10/2015 18:51:00
April 14, 2015
View d5ed124

Reverted to r101133, along with NAMESPACE fixes

Michael Lawrence authored on 14/04/2015 21:40:44
March 26, 2015
View c9319fc

screw it, just import all of GenomeInfoDb

Michael Lawrence authored on 26/03/2015 23:26:42
View ca61e3d

import Seqinfo from GenomeInfoDb

Michael Lawrence authored on 26/03/2015 23:22:03
March 25, 2015
View 3f46e6a

import seqinfo and seqlengths from GenomeInfoDb

Michael Lawrence authored on 25/03/2015 23:20:27
August 11, 2014
View c78be69

add codon tally support. No vbump yet

Gabriel Becker authored on 11/08/2014 23:42:48
July 28, 2014
View c0cce6c

follow renaming of TranscriptDb class -> TxDb

Herve Pages authored on 28/07/2014 23:15:59
May 2, 2014
View 6cca01e

resync with latest changes in GenomicRanges/GenomeInfoDb

Herve Pages authored on 02/05/2014 23:12:32
April 18, 2014
View f7ab666

resync with stuff moving from IRanges to S4Vectors

Herve Pages authored on 18/04/2014 15:04:25
April 4, 2014
View 30f3bfd

drop the unique read position counts; renamed count.pos/count.neg to (way better names)

Michael Lawrence authored on 04/04/2014 13:36:22
March 10, 2014
View fab13f0

TP53 genome is now named by the TxDb package from which the TP53 region was retrieved, so that it is automatically refreshed with annotation changes, and devel and release can coexist.

Michael Lawrence authored on 10/03/2014 23:10:51
February 13, 2014
View 9b877fe

import altDepth/refDepth

Michael Lawrence authored on 13/02/2014 18:55:50
November 8, 2013
View 6b077cc

better to not import readBamGappedAlignments at all (it's defunct)

Herve Pages authored on 08/11/2013 22:10:44
View f561cd9

Import readGAlignmentsFromBam from new GenomicAlignments package instead of Rsamtools (even though gmapR doesn't seem to use it internally).

Herve Pages authored on 08/11/2013 22:07:43