Bowtie Feature Requests

Brought to you by: ben_langmead, ch4rr0, ctrapnell, mcschatz

Feature Requests Maximize Restore

# Sort A -> Z Sort Z -> A	Summary▾ Sort A -> Z Sort Z -> A	Milestone▾ Sort A -> Z Sort Z -> A Filter by Milestone	Status▾ Sort A -> Z Sort Z -> A Filter by Status	Owner▾ Sort A -> Z Sort Z -> A Filter by Owner	Created▾ Sort A -> Z Sort Z -> A	Updated▾ Sort A -> Z Sort Z -> A	Priority▾ Sort A -> Z Sort Z -> A
72	include -mapq option	None	open	Ben Langmead	2012-03-09	2012-03-09	5
71	include -mapq option	None	open	Ben Langmead	2012-03-08	2012-03-08	5
70	make isize 0 when reads map to different ref sequences.	None	open	Ben Langmead	2012-02-23	2014-08-21	5
64	-m with Bowtie 2	None	open	Ben Langmead	2011-11-01	2011-11-01	5
63	please support unaligned bam format	None	open	Ben Langmead	2011-10-20	2011-10-20	5
58	Bowtie Number of Perfect Hits	None	open	Ben Langmead	2011-04-04	2011-04-04	4
56	SAM tag X0: Number of multihits per read	None	open	Ben Langmead	2010-12-10	2010-12-10	5
54	Request strand info in Crossbow output	None	open		2010-09-19	2010-09-19	5
53	Improved SAM support for colour space	None	open	Ben Langmead	2010-06-24	2010-06-24	5
50	SAM optional flag	None	open	Ben Langmead	2010-04-21	2010-04-21	5
42	unqiue mapping	None	pending	Ben Langmead	2010-02-20	2015-12-07	5
34	support additional SAM flags	None	open		2009-11-11	2009-11-11	5
23	support large genomes	None	open	Ben Langmead	2009-07-10	2009-07-10	5
15	reference ref_idx and read_idx	None	open	Ben Langmead	2009-03-10	2009-03-10	5
11	adapter trimming	None	open		2008-12-13	2008-12-18	1
8	Iterative trimming in SOAP mode	None	open		2008-11-13	2008-11-13	5

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