Skip to content
/ DrLink Public

Detecting recombination breakpoints using Linked read sequencing

2 stars 3 forks Branches Tags Activity
Star
Notifications You must be signed in to change notification settings

schneebergerlab/DrLink

BranchesTags

Folders and files

NameName
Last commit message
Last commit date

Latest commit

 

History

17 Commits
Rplot_src
Rplot_src
 
 
data
data
 
 
example_IOfiles
example_IOfiles
 
 
gzlib
gzlib
 
 
gzstream
gzstream
 
 
marker_set
marker_set
 
 
COPYRIGHTS
COPYRIGHTS
 
 
DrLink
DrLink
 
 
DrLink_pipeline.sh
DrLink_pipeline.sh
 
 
DrLink_v1.sp.cpp
DrLink_v1.sp.cpp
 
 
INSTALL
INSTALL
 
 
README.md
README.md
 
 
analyze_molecule.cpp
analyze_molecule.cpp
 
 
analyze_molecule.h
analyze_molecule.h
 
 
check_allele_order.cpp
check_allele_order.cpp
 
 
check_allele_order.h
check_allele_order.h
 
 
convert_bam.cpp
convert_bam.cpp
 
 
convert_bam.h
convert_bam.h
 
 
detect_recombsite.cpp
detect_recombsite.cpp
 
 
detect_recombsite.h
detect_recombsite.h
 
 
find_intersection.cpp
find_intersection.cpp
 
 
find_intersection.h
find_intersection.h
 
 
globals.cpp
globals.cpp
 
 
globals.h
globals.h
 
 
insert_raw_bp.cpp
insert_raw_bp.cpp
 
 
insert_raw_bp.h
insert_raw_bp.h
 
 
makefile
makefile
 
 
output_co.cpp
output_co.cpp
 
 
output_co.h
output_co.h
 
 
postprocess_bpPrediction.cpp
postprocess_bpPrediction.cpp
 
 
postprocess_bpPrediction.h
postprocess_bpPrediction.h
 
 
read_chrsize.cpp
read_chrsize.cpp
 
 
read_chrsize.h
read_chrsize.h
 
 
sample_molecule.cpp
sample_molecule.cpp
 
 
sample_molecule.h
sample_molecule.h
 
 
sample_molecule_v2.cpp
sample_molecule_v2.cpp
 
 
sample_molecule_v2.h
sample_molecule_v2.h
 
 
separate_chr.cpp
separate_chr.cpp
 
 
separate_chr.h
separate_chr.h
 
 
separate_chr_v2.cpp
separate_chr_v2.cpp
 
 
separate_chr_v2.h
separate_chr_v2.h
 
 
separate_kb_molecule.cpp
separate_kb_molecule.cpp
 
 
separate_kb_molecule.h
separate_kb_molecule.h
 
 
split_string.cpp
split_string.cpp
 
 
split_string.h
split_string.h
 
 

Repository files navigation

DrLink

Detecting recombination breakpoints using Linked read sequencing

These are the source codes supporting the analysis in Sun and Rowan et al., Nature Communications 10:4310, 2019.

Please refer to INSTALL for compiling. The current compilations have been successfully tested on Linux (arch: x_86_64, with g++ version Debian 6.3.0-18+deb9u1 and R version 3.5.1).

Please start with DrLink_pipeline.sh (step by step) to perform recombinant molecule prediction with 10X linked-reads.

About

Detecting recombination breakpoints using Linked read sequencing

Resources

Readme
Activity
Custom properties

Stars

2 stars

Watchers

1 watching

Forks

3 forks
Report repository

Releases

No releases published

Packages

No packages published

Languages