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2013-12-29Cleanup Makefile, add debugging output (for now)orbitz
2013-12-29Remove this shared thing...orbitz
2013-12-29Flip impossible orderingorbitz
2013-12-29Clneaup some whitespace, change how calloc calledorbitz
2013-12-29Namespace all the functions and make private ones staticorbitz
2013-12-29Clean up signed comparison warningsorbitz
2013-12-29Cleanup useless const decoratorsorbitz
2013-12-29Remove useless inline decoratororbitz
2013-12-29Align and label lookup maporbitz
2013-12-29Clean up indentation and whitespaceorbitz
2013-12-29Refactor to pull opening the file out of the count functionorbitz
2013-12-29Cleanup indentation and whitespaceorbitz
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
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