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Diffstat (limited to 'README.md')
| -rw-r--r-- | README.md | 5 |
1 files changed, 4 insertions, 1 deletions
@@ -120,6 +120,7 @@ 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" (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) +output\_top\_nb | 10000 | How many scores do you want to output in your sorted output file? ## Equations @@ -169,7 +170,9 @@ The file structure outputted by default is this: ├── $foreground-filtered-counts # final filtered mers used for select_mers.py ├── parameters # parameters used in the run ├── selected-mers # final filtered mers used for select_mers.py - └── scores-output # file outputted by score_mers.py + ├── selected-mers # final filtered mers used for select_mers.py + ├── all-scores #file outputted by score_mers.py (all the scores generated) + └── top-scores # the sorted top $output_top_nb scores from all-scores ### select\_mers.py output |