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Diffstat (limited to 'README.md')
| -rw-r--r-- | README.md | 6 |
1 files changed, 5 insertions, 1 deletions
@@ -48,7 +48,8 @@ ignore\_mers | Not Enabled | mers to explicitly ignore, space seperated ex. igno foreground | Not Enabled | path of foreground file background | Not Enabled | path of background file max\_consecutive\_binding | 4 | The maxium number of consecutive binding nucleotides in homodimer and heterodimers -fg\_weight | 0 | How much extra weight to give higher frequency mers in fg. see "equations" +fg\_weight | 0 | How much extra weight to give higher frequency mers in fg. see "equations" (between 0 and 1) +primer\_weight | 0 | How much extra weight to give to sets with a higher number of priemrs. (between 0 and 1) ## Equations @@ -66,3 +67,6 @@ environmental variable if you wish to do so. hit = abundance of primer X (ex. 'ATGTA') in background (foreground hit / background hit) * (foreground hit ^ fg_weight) + + +### Score function |