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def
findBestMinimizerFile(minimizerDir: String, k: Int, m: Int)(implicit spark: SparkSession): String
Given a directory with files such as minimizers_28_10.txt, minimizers_55_9.txt...
Given a directory with files such as minimizers_28_10.txt, minimizers_55_9.txt... (minimizers_${k}_${m}.txt), find the most appropriate universal k-mer hitting set (for example, generated by PASHA) by searching all possible filenames. In general, it's possible to use a universal k-mer hitting set generated for a smaller k (with some loss of performance), but m must be the same. See https://github.com/ekimb/pasha.
- minimizerDir
Directory to scan
- k
k-mer width
- m
minimizer length
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