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2014-01-07fix kmer_counts_per_sequence, make sure we convert the array fully, and ↵Calvin Morrison
update kmer_utils for str[i] == 5 instead of >> 2
2013-11-24performance boost from skipping our first newline. It seems crazy, but this ↵Calvin Morrison
could be up to a 10-15% improvement because of our strstrip function. Each time we were copying the entire array, even if we didn't need to. There will be more of a benefit on a single line'd sequence file, but will see a speed up on all
2013-11-23fix labels, fix spelling of positionCalvin Morrison
2013-11-23better allocation of memory, make sure to free other memoryCalvin Morrison
2013-11-15Merge branch 'master' of github.com:mutantturkey/dna-utilsCalvin Morrison
2013-11-15instead of bitshift, use a equality operatorCalvin Morrison
2013-11-11fix memleakCalvin Morrison
2013-11-11fix warningsCalvin Morrison
2013-11-11fix printfCalvin Morrison
2013-11-11added label and nonzero optionsCalvin Morrison
2013-11-11index to kmerfunctionCalvin Morrison
2013-11-07update makefileCalvin Morrison
2013-11-07rename to counts per sequence, don't provide frequencies only countsCalvin Morrison
2013-11-07rename to counts per sequence, don't provide frequencies only countsCalvin Morrison
2013-11-06fix freeCalvin Morrison
2013-10-31fix memset againCalvin Morrison
2013-10-31Revert "fix memset"Calvin Morrison
This reverts commit 8784d26bf275128935a1f682fab6cfff30d2e15b.
2013-10-31fix memsetCalvin Morrison
2013-10-23output individual kmers if requestedCalvin Morrison
2013-10-17update makefile with dependencies and proper static linkingCalvin Morrison
2013-10-17add a static library to our makefileCalvin Morrison
2013-10-17update kmer utilsCalvin Morrison
2013-10-16reorder kmer_utils.h, actually take a kmer value as argv[2] for frequency, ↵Calvin Morrison
error check kmer
2013-10-16kmer utils.hCalvin Morrison
2013-10-16frequency_per_sequence still needs refactoringCalvin Morrison
2013-10-16works with multiline sequences, abstracted most code to kmer_utils.cCalvin Morrison
2013-10-16added new functionsCalvin Morrison
2013-10-16update makefileCalvin Morrison
2013-10-10 don't use the num_to_index function for more speeeeedCalvin Morrison
2013-10-10Merge branch 'master' of github.com:mutantturkey/dna-utils into HEADCalvin Morrison
2013-10-10update makefileCalvin Morrison
2013-10-10don't depend on math.h's POW by using a bitshift instead:Calvin Morrison
2013-10-06Update premature_optimization.mdCalvin Morrison
2013-10-06Update premature_optimization.mdCalvin Morrison
2013-10-06Update premature_optimization.mdCalvin Morrison
Adding the first attempt
2013-10-06Update premature_optimization.mdCalvin Morrison
Start fleshing it out
2013-10-06A story of my codeCalvin Morrison
2013-10-04Merge branch 'master' of github.com:mutantturkey/dna-utilsCalvin Morrison
2013-10-04no more branchingCalvin Morrison
2013-10-03Update README.mdCalvin Morrison
2013-10-03Create README.mdCalvin Morrison
Get a readme
2013-10-02provide errno error detailsCalvin Morrison
2013-10-02formattingCalvin Morrison
2013-10-02use an external iterator so that we can skip over anything in range of an errorwCalvin Morrison
2013-10-02remove unused headersCalvin Morrison
2013-10-02update headerCalvin Morrison
2013-10-02for kmer frequence per sequence as wellCalvin Morrison
2013-10-02add check for line length. if read > kmer we are good to goCalvin Morrison
2013-10-02add so support for makfileCalvin Morrison
2013-10-01update headers, use const for better performance (.500ms on ~2gb file), ↵Calvin Morrison
update comments for functions
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