 |
View 8b7fd7a
adjustments in response to the vals -> filter renaming in GenomicFeaturesHerve Pages authored on 05/04/2016 22:55:27 |
 |
View 8418591
resurrect improvements that we reverted before the April release, expect breakage for a whileMichael Lawrence authored on 28/10/2015 18:51:00 |
|
View d5ed124
Reverted to r101133, along with NAMESPACE fixesMichael Lawrence authored on 14/04/2015 21:40:44 |
|
View c8fd96e
Recent work towards supporting the new features... will revert back to a stable version immediately...Michael Lawrence authored on 14/04/2015 21:32:10 |
 |
View c78be69
add codon tally support. No vbump yetGabriel Becker authored on 11/08/2014 23:42:48 |
|
View f5e63d3
update to new bam_tally with support for XS counting, which we now support via BamTallyParam@count_xs.Michael Lawrence authored on 13/05/2014 02:04:05 |
|
View 17db5e7
update GSTRUCT (bam_tally); add include_soft_clip parameter for counting over soft clips of a given max length (more accurate allele frequency)Michael Lawrence authored on 02/04/2014 22:03:40 |
|
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 |
|
View 0379507
clip_overlaps should be clip_overlapMichael Lawrence authored on 12/02/2014 17:13:58 |
|
View afabc0f
vignette improvementsMichael Lawrence authored on 14/01/2014 19:15:01 |
 |
View 05eefee
call Rcode{} instead of code{}Dan Tenenbaum authored on 25/09/2013 20:07:03 |
|
View 4d5cc80
update to latest gstruct; brings faster bam_tally (for high coverage regions) and read-group filtering support in bam_tallyMichael Lawrence authored on 20/09/2013 02:05:42 |
|
View 59c3684
Refactor bam_tally, so that bam_tally returns a TallyIIT object, which is then summarized via summarizeVariants; this allows computing tallies once and summarizing them in different ways (like maybe get the coverage). The summarizeVariants function yields a VRanges.Michael Lawrence authored on 14/07/2013 00:43:43 |
 |
View c57fb7e
dropped size of kmer from 15 down to 12 for creation of GmapGenome object in vignette for the purpose of reducing memory footprint so gmapR builds on modern MacbooksCory Barr authored on 28/11/2012 22:29:13 |
|
View a500e01
*Hutch's Mac build machine was running out of memory during build. Reduced the memory footprint used by lowering the k-mer size used for creating the fly GmapGenome in the vignette.Cory Barr authored on 27/11/2012 19:34:50 |