├── 1.find_position_bam ├── 1.find_position_bam.cpp ├── 10.combining.py ├── 11.merging.py ├── 2.sort.py ├── 3.count.py ├── 4.cut_threshold.py ├── 5.coverage.py ├── 6.get_depth.py ├── 7.ana_depth.py ├── 8.count-1_depth.py ├── 9.digenome_score.py ├── Cas-offinder sources ├── 150903_cas-offinder_analysis.py ├── 150903_mainframe.py ├── cas-offinder_analysis.py ├── cas-offinder_analysis_web.py ├── cas_finder_100_13000.py └── mainframe.py ├── Edit distance script ├── Edit_distance_readme.md ├── casoffinder.target_site.edit_distance.bulge.weight.py ├── edit.step.bulge.weight.py └── from.fast.get_29bp.for.revcomp.py ├── README.md ├── digenome-run └── install.sh /1.find_position_bam: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/1.find_position_bam -------------------------------------------------------------------------------- /1.find_position_bam.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/1.find_position_bam.cpp -------------------------------------------------------------------------------- /10.combining.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/10.combining.py -------------------------------------------------------------------------------- /11.merging.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/11.merging.py -------------------------------------------------------------------------------- /2.sort.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/2.sort.py -------------------------------------------------------------------------------- /3.count.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/3.count.py -------------------------------------------------------------------------------- /4.cut_threshold.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/4.cut_threshold.py -------------------------------------------------------------------------------- /5.coverage.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/5.coverage.py -------------------------------------------------------------------------------- /6.get_depth.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/6.get_depth.py -------------------------------------------------------------------------------- /7.ana_depth.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/7.ana_depth.py -------------------------------------------------------------------------------- /8.count-1_depth.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/8.count-1_depth.py -------------------------------------------------------------------------------- /9.digenome_score.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/9.digenome_score.py -------------------------------------------------------------------------------- /Cas-offinder sources/150903_cas-offinder_analysis.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/Cas-offinder sources/150903_cas-offinder_analysis.py -------------------------------------------------------------------------------- /Cas-offinder sources/150903_mainframe.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/Cas-offinder sources/150903_mainframe.py -------------------------------------------------------------------------------- /Cas-offinder sources/cas-offinder_analysis.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/Cas-offinder sources/cas-offinder_analysis.py -------------------------------------------------------------------------------- /Cas-offinder sources/cas-offinder_analysis_web.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/Cas-offinder sources/cas-offinder_analysis_web.py -------------------------------------------------------------------------------- /Cas-offinder sources/cas_finder_100_13000.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/Cas-offinder sources/cas_finder_100_13000.py -------------------------------------------------------------------------------- /Cas-offinder sources/mainframe.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/Cas-offinder sources/mainframe.py -------------------------------------------------------------------------------- /Edit distance script/Edit_distance_readme.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/Edit distance script/Edit_distance_readme.md -------------------------------------------------------------------------------- /Edit distance script/casoffinder.target_site.edit_distance.bulge.weight.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/Edit distance script/casoffinder.target_site.edit_distance.bulge.weight.py -------------------------------------------------------------------------------- /Edit distance script/edit.step.bulge.weight.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/Edit distance script/edit.step.bulge.weight.py -------------------------------------------------------------------------------- /Edit distance script/from.fast.get_29bp.for.revcomp.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/Edit distance script/from.fast.get_29bp.for.revcomp.py -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/README.md -------------------------------------------------------------------------------- /digenome-run: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/digenome-run -------------------------------------------------------------------------------- /install.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chizksh/digenome-toolkit2/HEAD/install.sh --------------------------------------------------------------------------------