quikr.git - Quikr - a bio classifier based on NNLS

Age	Commit message (Collapse)	Author
2013-10-31	exit if no sequences	Calvin Morrison

2013-10-31	fix a bug so we only read when the length is greater han the kmer	Calvin Morrison

2013-10-29	remove the fasta file requirement for multifasta, and no longer parse ↵	Calvin Morrison
	headers (we already do)
2013-10-29	initial commit of multifasta_to_otu.c working with new format	Calvin Morrison

2013-10-29	update tpyes for quikr_train.c	Calvin Morrison

2013-10-29	update types for quikr_functions	Calvin Morrison

2013-10-29	update types and check malloc	Calvin Morrison

2013-10-29	append variables in makefile to reduce redundancy	Calvin Morrison

2013-10-29	use type in memset, add +1 to our matrix width	Calvin Morrison

2013-10-29	update errors from load_sensing_matrix	Calvin Morrison

2013-10-29	update quikr to work with internally parsed sensing matrix	Calvin Morrison

2013-10-29	update header	Calvin Morrison

2013-10-29	fix memset in quikr_train as weel	Calvin Morrison

2013-10-29	Fix a nasty bug in kmer-counting code	Calvin Morrison
	Memset of course does not deal properly with the unsigned long long type so we need to compensate by doing sizeof(unsigned long long) * width to fix the issue
2013-10-28	update kmer utils	Calvin Morrison

2013-10-28	New sensing matrix format	Calvin Morrison
	quikr_train now has a new format that should allow for a more sane approach in terms of usability. headers are now packed into the format, and counts, not probabilities are included as each row the header looks like quikr version of format sequences kmer >header 2 4 12 22 ... n-mers >header2 ....
2013-10-28	update Makefile to be more sane and use targets correctly	Calvin Morrison

2013-10-28	Update quikr_functions to read our sensing format	Calvin Morrison

2013-10-18	add kmercounting code from dna-utils. update our make file to support ↵	Calvin Morrison
	debugging, and update quikr to count-kmer code internally
2013-09-05	last fixes for 1.0.4v1.0.4	Calvin Morrison

2013-09-05	bump to version v1.0.4	Calvin Morrison

2013-09-05	Merge branch 'master' of github.com:mutantturkey/quikr	Calvin Morrison

2013-09-05	build nbc and c before we install quikr	Calvin Morrison

2013-09-05	update cli.markdown to remove debug	Calvin Morrison

2013-09-05	Remove debugging version	Calvin Morrison
	remove the debugging option for quikr, since there is not a reason to keep it anymore, consider it cruft. Our users are unlikely to ever use it and the same for us - remove from manpage - remove from quikr.c
2013-09-05	README formatting	Calvin Morrison
	- add two spaces after each section - add question marks to the question titles
2013-09-05	Merge branch 'master' of github.com:EESI/quikr	Calvin Morrison

2013-08-30	Update cli.markdown	Calvin Morrison
	Fix markdown formatting, and add some details about the pre-requisites for multifasta
2013-08-29	parse -h and --help and print out the help message	Calvin Morrison

2013-08-20	Don't escape _'s	Calvin Morrison

2013-08-16	Merge branch 'master' of github.com:EESI/quikr	Calvin Morrison

2013-08-16	Merge branch 'master' of github.com:mutantturkey/quikr	Calvin Morrison

2013-08-16	remove unused case	Calvin Morrison

2013-08-12	Merge pull request #1 from gailrosen/patch-1	Calvin Morrison
	Update matlab.markdown
2013-08-12	Update matlab.markdown	gailrosen
	The other version was not properly viewable. Now it is.
2013-06-13	use readdir and #omp criticalv1.0.3	Calvin

2013-06-12	update multifasta paths	Calvin

2013-06-12	fix case	Calvin

2013-06-12	update documention to include current arguments	Calvin

2013-06-12	fix missing comma	Calvin

2013-06-12	update version to v1.0.3	Calvin

2013-06-12	add --version and -V	Calvin

2013-06-12	use larger size for count_commmand, remove extra quotes, and fix a broken ↵	Calvin Morrison
	check in multifasta2otu
2013-06-12	Matlab: move multifasta2otu into the main quikr folder	Calvin Morrison

2013-06-11	Merge branch 'master' of github.com:EESI/quikr	Calvin

2013-06-11	Merge branch 'master' of github.com:mutantturkey/quikr	Calvin

2013-06-11	finally push this patch to fix the lack of an end	Calvin

2013-06-11	make documentation more consistent	Calvin Morrison

2013-06-11	updated changelog	Calvin Morrison

2013-06-11	remove file	Calvin Morrison