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2014-02-02add install sectionCalvin Morrison
2014-02-02add commentCalvin Morrison
2014-02-01remove str alloc and replace inside s for strstrCalvin Morrison
2014-02-01use pow_four insteadCalvin Morrison
2014-02-01add getopts to kmer_counts_per_sequene and sparse output optionsCalvin Morrison
2014-02-01change headers, organizeCalvin Morrison
2014-02-01use proper types, fix warnings, declare vars at top of section, take FILE ↵Calvin Morrison
instead of char
2014-02-01fix spacingCalvin Morrison
2014-02-01update types of functions, remove non existant include and se size_t for ↵Calvin Morrison
strnstrip
2014-02-01add --helpCalvin Morrison
2014-02-01backport stdin readingCalvin Morrison
2014-02-01get rid of position, add helpCalvin Morrison
2014-02-01use false instead of 0Calvin Morrison
2014-02-01add help functionCalvin Morrison
2014-02-01simplify makefileCalvin Morrison
2014-01-31remove commasCalvin Morrison
2014-01-31update readmeCalvin Morrison
2014-01-31add --help text for kmer_total_countCalvin Morrison
2014-01-31fix argv/c checkingCalvin Morrison
2014-01-30kmer_count_per_sequence: add option to load specific mers from file, add ↵Calvin Morrison
multiline ecounting
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