Updated samtools to 0.1.19

[rsem.git] / README.md

diff --git a/README.md b/README.md
index f729ef8136adfa47c293ff4d6d0aada39dd30416..e3e890c75196ece8e41ac560df035a0c625981f8 100644 (file)
--- a/README.md
+++ b/README.md
@@ -46,6 +46,13 @@ To compile RSEM, simply run
    
     make
 
+For cygwin users, please uncomment the 3rd and 7th line in
+'sam/Makefile' before you run 'make'.
+
+To compile EBSeq, which is included in the RSEM package, run
+
+    make ebseq
+
 To install, simply put the rsem directory in your environment's PATH
 variable.
 
@@ -111,7 +118,7 @@ using an alternative aligner, you may also want to provide the
 indices are not built.
 
 RSEM requires all alignments of the same read group together. For
-paired-end reads, RSEM also requires the two mates of any alignment be
+vpaired-end reads, RSEM also requires the two mates of any alignment be
 adjacent. To check if your SAM/BAM file satisfy the requirements,
 please run