diff --git a/CHANGELOG b/CHANGELOG index c741d5d..c96a2e6 100644 --- a/CHANGELOG +++ b/CHANGELOG @@ -1,4 +1,8 @@ +1.0.2 / 08-05-2018 +================== + * Added ngsLD as a sub-repository + 1.0.1 / 20-05-2016 ================== * Added ngsF-HMM as a sub-repository diff --git a/Makefile b/Makefile index 56f1ca5..f17d8cd 100644 --- a/Makefile +++ b/Makefile @@ -2,7 +2,7 @@ export HTSSRC=../htslib/ EXT = htslib angsd -TOOLS = ngsSim ngsPopGen ngsUtils ngsDist ngsF ngsF-HMM +TOOLS = ngsSim ngsPopGen ngsUtils ngsDist ngsLD ngsF ngsF-HMM all: $(EXT) $(TOOLS) diff --git a/README.md b/README.md index f35a6bf..721e394 100644 --- a/README.md +++ b/README.md @@ -44,6 +44,8 @@ Packages * [ngsF-HMM](https://github.com/fgvieira/ngsF-HMM) is a program developed and written by F.G. Vieira to estimate per-individual inbreeding tracts using a two-state Hidden Markov Model ([Vieira et al. 2016](http://bioinformatics.oxfordjournals.org/content/32/14/2096)). It uses a probabilistic framework that takes the uncertainty of genotype's assignation into account; making it specially suited for low-quality or low-coverage datasets. It is not officially part of ngsTools so it must be installed separately. +* [ngsLD](https://github.com/fgvieira/ngsLD) is a program that calculates pairwise Linkage Disequilibrium (LD) under a probabilistic framework ([Fox et al., 2018](http://onlinelibrary.wiley.com/doi/10.1111/bij.12511/abstract)). + Installation -------------------------------------------------- diff --git a/ngsLD b/ngsLD new file mode 160000 index 0000000..f842b18 --- /dev/null +++ b/ngsLD @@ -0,0 +1 @@ +Subproject commit f842b1818eb7953dd4f22b8a7b330622e139ba26