December 14, 2016
View0771cfd

be more flexible when getting genome name

Michael Lawrence authored on 14/12/2016 18:20:28
November 19, 2015
View2332d26

add untested support for FaFile=>GmapGenome

Michael Lawrence authored on 19/11/2015 18:51:30
February 12, 2015
View53f6387

getSeq,GmapGenome now checks that seqinfo(x) and seqinfo(which) are compatible

Michael Lawrence authored on 12/02/2015 21:44:32
October 11, 2014
View555225f

allow genomes to be built from any sequence file supported by rtracklayer

Michael Lawrence authored on 11/10/2014 18:17:31
August 11, 2014
Viewc78be69

add codon tally support. No vbump yet

Gabriel Becker authored on 11/08/2014 23:42:48
July 28, 2014
Viewc0cce6c

follow renaming of TranscriptDb class -> TxDb

Herve Pages authored on 28/07/2014 23:15:59
September 20, 2013
View6bf0a27

suppressWarnings on the read.table in Seqinfo,GmapGenome; complained about colClasses being too long (for older indexes) even when fill=TRUE.

Michael Lawrence authored on 20/09/2013 02:03:57
September 16, 2013
Viewe0faa99

support circular flag in seqinfo,GmapGenome

Michael Lawrence authored on 16/09/2013 23:22:09
August 23, 2013
Viewd157a85

check if GmapGenome exists before extracting Seqinfo

Michael Lawrence authored on 23/08/2013 14:16:30
July 15, 2013
Viewf18863b

add showAsCell,GmapGenome

Michael Lawrence authored on 15/07/2013 23:42:19
July 14, 2013
View66e08db

GmapGenome now accepts a direct path to the genome as its first argument

Michael Lawrence authored on 14/07/2013 00:32:56
April 3, 2013
Viewb19add7

Make sure that the genome index exists before attempting to retrieve sequence.

Michael Lawrence authored on 03/04/2013 18:46:36
April 2, 2013
View609d2fc

fix naming in GmapGenome->DNAStringSet coercion

Michael Lawrence authored on 02/04/2013 22:42:00
March 27, 2013
View2f697ca

Add GmapGenome->DNAStringSet coercion, exports the whole genome sequence. This means export(x, "genome.fasta") should work.

Michael Lawrence authored on 27/03/2013 19:11:09
View8edb187

Make seqinfo(x) the default for 'which' in getSeq,GmapGenome

Michael Lawrence authored on 27/03/2013 18:47:53