X-Git-Url: https://git.donarmstrong.com/?p=rsem.git;a=blobdiff_plain;f=WHAT_IS_NEW;h=ecd93cf519e6f4d8d3e00cf6484b78c0c926f119;hp=b942a635a25fb74ed249f98d1e50f838949b91a4;hb=7cd7abcad92a44bbd5d8d1b2bb3a871cd479c0bf;hpb=4f7502168c3816ba3283385f093e599527e2b144

diff --git a/WHAT_IS_NEW b/WHAT_IS_NEW
index b942a63..ecd93cf 100644
--- a/WHAT_IS_NEW
+++ b/WHAT_IS_NEW
@@ -1,7 +1,17 @@
+RSEM v1.2.13
+
+- Allowed users to use the SAMtools in the PATH first and enabled RSEM to find its executables via a symbolic link
+- Changed the behavior of parsing GTF file. Now if a GTF line's feature is not "exon" and it does not contain a "gene_id" or "transcript_id" attribute, only a warning message will be produced (instead of failing the RSEM)
+
+--------------------------------------------------------------------------------------------
+
 RSEM v1.2.12
 
 - Enabled allele-specific expression estimation
-- Added option '--calc-pme' option to calculate posterior mean estimates only (no credibility intervals)
+- Added '--calc-pme' option for 'rsem-calculate-expression' to calculate posterior mean estimates only (no credibility intervals)
+- Modified the shebang line of RSEM perl scripts to make them more portable
+- Added '--seed' option for 'rsem-simulate-reads' to enable users set the seed of random number generator used by the simulation
+- Modified the transcript extraction behavior of 'rsem-prepare-reference'. For transcripts that cannot be extracted, instead of failing the whole script, warning information is produced. Those transcripts are ignored
 
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