X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=WHAT_IS_NEW;h=da4c7641ec2eb721e6e975ab0b17d0dd198d683a;hb=3a28bf235e7b1f5407ce8d177b61de2e8dabc7e6;hp=30d927063a3610926219a01c7431e335a41f08a6;hpb=f205fc0144198dee52c71d0d5d6267d9e8880fff;p=rsem.git

diff --git a/WHAT_IS_NEW b/WHAT_IS_NEW
index 30d9270..da4c764 100644
--- a/WHAT_IS_NEW
+++ b/WHAT_IS_NEW
@@ -1,3 +1,32 @@
+RSEM v1.2.13
+
+- 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 '--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
+
+--------------------------------------------------------------------------------------------
+
+RSEM v1.2.11
+
+- Enabled RSEM to use Bowtie 2 aligner (indel, local and discordant alignments are not supported yet)
+- Changed option names '--bowtie-phred33-quals', '--bowtie-phred64-quals' and '--bowtie-solexa-quals' back to '--phred33-quals', '--phred64-quals' and '--solexa-quals' 
+
+--------------------------------------------------------------------------------------------
+
+RSEM v1.2.10
+
+- Fixed a bug which will lead to out-of-memory error when RSEM computes ngvector for EBSeq
+
+--------------------------------------------------------------------------------------------
+
 RSEM v1.2.9
 
 - Fixed a compilation error problem in Mac OS