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| -rw-r--r-- | README.md | 11 |
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@@ -13,6 +13,7 @@ PI: http://brisson.bio.upenn.edu/ * [Running Individual Steps](#running-individual-steps) * [Manually Scoring Specific Mer Combinations From List ](#manually-scoring-specific-mer-combinations-from-list) * [Manually Score All Combinations From List](#manually-score-all-combinations-from-list) + * [Manually Rescore All Combinations From Previously Scored File](#manually-rescore-all-combinations-from-previously-scored-file) * [Table of Tunable Parameters](#tunable-parameters) * [Equations](#equations) * [Mer Selectivity](#mer-selectivity) @@ -129,6 +130,16 @@ The mer file should look like this: each row is a separate mer. do not put multiple mers on one line. +### Manually rescore all combinations from previously scored file + +Users can manually rescore all combinations of mers they previously used in the +score\_mers.py script. This allows users to test different score functions easily +with the same combinations. + +An example would be this: + + score_func=nb_primers**2 score_mers.py -f fg.fa -b bg.fa -r fg_bg/run_1/all-scores -o primers_squared_scores + ## Tunable Parameters |