From a95e186a7461583a1696d5bfa30cfd30be6bd2c8 Mon Sep 17 00:00:00 2001 From: Kwee Boon Brandon Seah Date: Mon, 7 Sep 2020 19:07:48 +0200 Subject: [PATCH] Fix markdown formatting --- README.md | 26 +++++++++++++------------- 1 file changed, 13 insertions(+), 13 deletions(-) diff --git a/README.md b/README.md index c36efcf..9ca5dd8 100644 --- a/README.md +++ b/README.md @@ -13,17 +13,17 @@ MNase-Seq or DNase-Seq experiments. # Output data - [x] DNA fragment length histogram, evaluates effectiveness of digestion - [ ] Nucleosome occupancy map (simply coverage pileup for specific fragment range) - [x] Nucleosome absolute positioning map (using nucleosome _centers_ rather than + - [x] DNA fragment length histogram, evaluates effectiveness of digestion + - [ ] Nucleosome occupancy map (simply coverage pileup for specific fragment range) + - [x] Nucleosome absolute positioning map (using nucleosome _centers_ rather than read starts) - [ ] With the high-accuracy procedure of Cole (2012) - [x] With broader fragment range - [x] Smoothed positioning map - [ ] Occupancy map (smoothing with uniform kernel and width 73) - [ ] Nucleosome conditional positioning map (like Kaplan 2010) - [x] Nucleosome global phaseogram (using nucleosome _centers_ vs read starts) - [x] Nucleosome localization measure map (using procedure of Zhang et al.) - [ ] Nucleosome calls (using iterative procedure of Kaplan et al 2010) - [x] Nucleosome feature-specific phaseogram (e.g. relative to TSS) - [ ] Well positioned nucleosome array calls (using FFT procedure) + - [ ] With the high-accuracy procedure of Cole (2012) + - [x] With broader fragment range + - [x] Smoothed positioning map + - [ ] Occupancy map (smoothing with uniform kernel and width 73) + - [ ] Nucleosome conditional positioning map (like Kaplan 2010) + - [x] Nucleosome global phaseogram (using nucleosome _centers_ vs read starts) + - [x] Nucleosome localization measure map (using procedure of Zhang et al.) + - [ ] Nucleosome calls (using iterative procedure of Kaplan et al 2010) + - [x] Nucleosome feature-specific phaseogram (e.g. relative to TSS) + - [ ] Well positioned nucleosome array calls (using FFT procedure)