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execublog1/data-athyra/dsk_5_22.time

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1053.88user 94.54system 19:29.51elapsed 98%CPU (0avgtext+0avgdata 5247560maxresident)k
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9776312inputs+94842616outputs (0major+52430991minor)pagefaults 0swaps
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1840.55user 154.89system 5:15.41elapsed 632%CPU (0avgtext+0avgdata 5254276maxresident)k
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4079264inputs+94842920outputs (3major+32793908minor)pagefaults 0swaps

execublog1/system_time.png

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execublog1/time.png

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execublog1/usertime_ratio.png

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figure/average_offset_vs_fpr.pdf

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figure/count_benchmark.pdf

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figure/disk_benchmark.pdf

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figure/memory_benchmark.pdf

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figure/num_bad_reads.pdf

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figure/num_remaining_reads.pdf

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figure/perc_unique_pos.pdf

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figure/percent_offset_vs_fpr.pdf

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figure/time_benchmark.pdf

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khmer-counting.bib

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%% Saved with string encoding Unicode (UTF-8)
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@Article{pubmed19997069,
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author = "ML Metzker",
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title = "Sequencing technologies - the next generation.",
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journal = "Nat Rev Genet",
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year = "2010",
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volume = "11",
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number = "1",
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pages = "31-46"
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}
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@Article{pubmed21926975,
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author = "H Chitsaz and JL Yee-Greenbaum and G Tesler and MJ Lombardo and CL Dupont and JH Badger and M Novotny and DB Rusch and LJ Fraser and NA Gormley and O Schulz-Trieglaff and GP Smith and DJ Evers and PA Pevzner and RS Lasken",
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title = "Efficient de novo assembly of single-cell bacterial genomes from short-read data sets.",

khmer-counting.tex

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notebook/khmer-counting-compare.ipynb

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notebook/khmer-counting.ipynb

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