From 8ff87685e5195105e52e3bee85e6a02c616c2b23 Mon Sep 17 00:00:00 2001 From: Heng Li Date: Thu, 21 Jan 2021 11:58:50 -0500 Subject: [PATCH 1/2] updated Makefile dependencies --- Makefile | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/Makefile b/Makefile index 7da5789..ebc3c11 100644 --- a/Makefile +++ b/Makefile @@ -43,7 +43,7 @@ Assembly.o: kthread.h CommandLines.o: CommandLines.h ketopt.h Correct.o: Correct.h Hash_Table.h htab.h Process_Read.h Overlaps.h kvec.h Correct.o: kdq.h CommandLines.h Levenshtein_distance.h POA.h Assembly.h -Correct.o: ksw2.h +Correct.o: ksw2.h ksort.h Hash_Table.o: Hash_Table.h htab.h Process_Read.h Overlaps.h kvec.h kdq.h Hash_Table.o: CommandLines.h ksort.h Levenshtein_distance.o: Levenshtein_distance.h From 4f5d404e2ad2fb842324acf3bef664429d025ea2 Mon Sep 17 00:00:00 2001 From: Christopher Bottoms Date: Mon, 8 Feb 2021 14:19:17 -0600 Subject: [PATCH 2/2] Added citation --- README.md | 6 +++++- 1 file changed, 5 insertions(+), 1 deletion(-) diff --git a/README.md b/README.md index ac76766..5dd7a5a 100644 --- a/README.md +++ b/README.md @@ -192,4 +192,8 @@ page](https://github.com/chhylp123/hifiasm/issues). ## Limitations -1. Purging haplotig duplications may introduce misassemblies. \ No newline at end of file +1. Purging haplotig duplications may introduce misassemblies. + +## Citation + +Cheng, H., Concepcion, G.T., Feng, X., Zhang, H., Li H. Haplotype-resolved de novo assembly using phased assembly graphs with hifiasm. Nat Methods 18, 170–175 (2021). https://doi.org/10.1038/s41592-020-01056-5