From be8db0ae160197a796161f8acc3320c72c3dcffc Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Tao=20Liu=20=28=CF=84=CE=BD=29?= Date: Wed, 30 Oct 2024 10:29:00 -0400 Subject: [PATCH] Update hmmratac.md --- docs/source/docs/hmmratac.md | 12 ++++++------ 1 file changed, 6 insertions(+), 6 deletions(-) diff --git a/docs/source/docs/hmmratac.md b/docs/source/docs/hmmratac.md index 2c90204f..d11700d3 100644 --- a/docs/source/docs/hmmratac.md +++ b/docs/source/docs/hmmratac.md @@ -54,14 +54,14 @@ columns are: 2. start position of the accessible region 3. end position of the accesssible region 4. peak name - 5. peak score. The score is the maximum foldchange (signal/average - signal) within the peak. By default, the signal is the total - pileup of all types of fragments from short to tri-nuc size - fragments. - 6. Not used + 5. peak score. The score is the 10times the maximum foldchange + (signal/average signal) within the peak. By default, the 'signal' + used to calculate foldchange is the total pileup of all types of + fragments from short to tri-nuc size fragments. 7. Not used 8. Not used - 9. peak summit position. It's the relative position from the start + 9. Not used + 10. peak summit position. It's the relative position from the start position to the peak summit which is defined as the position with the maximum foldchange score.