From 2f811bd53075bc4f723a05f084590355056f4ed3 Mon Sep 17 00:00:00 2001 From: Bo Li Date: Mon, 1 Feb 2016 02:06:28 -0800 Subject: [PATCH] Updated README.md --- README.md | 8 ++++++-- 1 file changed, 6 insertions(+), 2 deletions(-) diff --git a/README.md b/README.md index 754933d..8f0f403 100644 --- a/README.md +++ b/README.md @@ -567,8 +567,8 @@ be sent to Ning Leng. ## Acknowledgements -RSEM uses the [Boost C++](http://www.boost.org) and -[samtools](http://samtools.sourceforge.net) libraries. RSEM includes +RSEM uses the [Boost C++](http://www.boost.org/) and +[SAMtools](http://www.htslib.org/) libraries. RSEM includes [EBSeq](http://www.biostat.wisc.edu/~ningleng/EBSeq_Package/) for differential expression analysis. @@ -576,6 +576,10 @@ We thank earonesty and Dr. Samuel Arvidsson for contributing patches. We thank Han Lin, j.miller, Joël Fillon, Dr. Samuel G. Younkin and Malcolm Cook for suggesting possible fixes. +**Note** that `bam_sort.c` of SAMtools is slightly modified so that + `samtools sort -n` will not move the two mates of paired-end + alignments apart. + ## License RSEM is licensed under the [GNU General Public License