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author | Calvin Morrison <mutantturkey@gmail.com> | 2014-03-31 13:27:06 -0400 |
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committer | Calvin Morrison <mutantturkey@gmail.com> | 2014-03-31 13:27:06 -0400 |
commit | 5a5d89d3881cb0d9014168845d96e5eebeb2bd42 (patch) | |
tree | 72ad2c1cb7aad7a9100c640b81741db96786fa48 /README.md | |
parent | 59ac62e890a7a1c11c6e316f12fd284b31c0c4ab (diff) |
Add feature to have a top-scores file. closes issue #21
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 |