dna-utils.git - Tools for parsing FASTA files very fast

Age	Commit message (Collapse)	Author
2013-10-31	Revert "fix memset"	Calvin Morrison
	This reverts commit 8784d26bf275128935a1f682fab6cfff30d2e15b.
2013-10-31	fix memset	Calvin Morrison

2013-10-16	reorder kmer_utils.h, actually take a kmer value as argv[2] for frequency, ↵	Calvin Morrison
	error check kmer
2013-10-16	frequency_per_sequence still needs refactoring	Calvin Morrison

2013-10-10	don't use the num_to_index function for more speeeeed	Calvin Morrison

2013-10-10	don't depend on math.h's POW by using a bitshift instead:	Calvin Morrison

2013-10-04	no more branching	Calvin Morrison

2013-10-02	provide errno error details	Calvin Morrison

2013-10-02	use an external iterator so that we can skip over anything in range of an errorw	Calvin Morrison

2013-10-02	for kmer frequence per sequence as well	Calvin Morrison

2013-09-28	idea	Calvin Morrison

2013-09-13	don't use strlen(line) when we already have that in the read variable	Calvin Morrison

2013-09-11	use right types	Calvin Morrison

2013-09-11	move declarations to top, make sure to use the appropriate type	Calvin Morrison

2013-09-11	add headers	Calvin Morrison

2013-09-10	Initial commit of some kmer utilities.	Calvin Morrison
	there are two utilties included. one is kmer_frequency_per_sequence, which outputs a (m x n) matrix where m is the sequence, and n is the frequency of that nmer to occur in the given sequence. the other tool is kmer_total_count, which counts kmers for the total file, not just one sequence