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

Age	Commit message (Collapse)	Author
2013-06-11	finally push this patch to fix the lack of an end	Calvin

2013-06-11	remove extra word	Calvin

2013-06-11	updated functions with long	Calvin

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

2013-06-11	use int64_t for NNLS to avoid overflow issues	Calvin

2013-06-11	small edits to man page	Calvin

2013-06-11	use longs instead of ints, fix a mistake in the --help	Calvin

2013-06-10	finish gzip decoding, YOU MUST retrain your api	Calvin

2013-06-10	native zlib decoding for quikr/multifasta, was done earlier but never ↵	Calvin
	commited for some reason
2013-06-10	remove unused variable	Calvin

2013-06-07	quikrCustomTranied was not using the specified kmer. Use the correct kmer ↵	Calvin Morrison
	and also rename rws and clmns to rows and columns respectively :
2013-06-07	free getline's calls	Calvin Morrison

2013-06-07	updated help text and manpages	Calvin

2013-06-06	fixed a malloc error, and fixed some strings	Calvin

2013-05-28	modified quikrTrain.m to not depend on a mer file, instead use the ↵	Calvin
	generate_kmers
2013-05-28	removed files	Calvin

2013-05-28	removed unused nbc code	Calvin

2013-05-20	use nnn instead on n*n for nnls	Calvin

2013-05-20	updated documentation strings, add man page to be installed globally	Calvin

2013-05-19	native gzip decoding	Calvin Morrison

2013-05-16	used newlines in readme for clarity, update our references to the ../../../data/	Calvin

2013-05-15	python: add some more descriptive comments, use lamb instead of default lamb	Calvin

2013-05-15	removed the bsd license	Calvin

2013-05-15	added file checking for multifasta_to_otu	Calvin

2013-05-15	add some error checking	Calvin

2013-05-15	cleanup kmer/lambda default values	Calvin

2013-05-15	add -d flag for debugging so verbose doesn't take longer, use generate_kmers ↵	Calvin
	instead of a hacky awk
2013-05-14	release1.0	Calvin

2013-05-14	add some documentation	Calvin

2013-05-14	delete spurious print	Calvin

2013-05-14	fixed kmer argument bug	Calvin

2013-05-14	use sensing matrix	Calvin

2013-05-14	remove generate kmers from quikr	Calvin

2013-05-14	have matlab use global executables	Calvin

2013-05-14	generate kmers should stand alone	Calvin

2013-05-14	remove probabilties by read	Calvin

2013-05-10	don't use an output directory, and use basename's for the OTU_table	Calvin

2013-05-03	multifasta now reads .fa and fasta file sonly	Calvin

2013-05-03	modified command line arguments	Calvin

2013-05-03	use a default kmer size of six	Calvin

2013-05-03	updated documentation , added multi_gg_final.m	Calvin

2013-05-03	added a contributor	Calvin

2013-05-03	do some very basic error checking on generate_kmers	Calvin

2013-05-03	added nbc classifier source	Calvin

2013-03-26	add / when reading back in, and sort our input list	Calvin

2013-03-26	added / to output file name	Calvin

2013-03-18	use env to find python	Calvin

2013-03-18	Merge remote-tracking branch 'origin/master'	Calvin

2013-03-18	don't try and force 2.7, it might not work	Calvin

2013-03-18	remove checking, seems like the sml code isn't returning sane values	mutantturkey