RSEM v1.2.25

• RSEM will extract gene_name/transcript_name from GTF file when possible; however, it only appends them to the 'sample_name.*.results' files if '--append-names' option is specified; unlike v1.2.24, this version is compatible with STAR aligner even when '--append-names' is set

RSEM v1.2.24

• RSEM will extract gene_name/transcript_name from GTF file when possible; if extracted, gene_name/transcript_name will append at the end of gene_id/transcript_id with an underscore in between
• Modified 'rsem-plot-model' to indicate the modes of fragment length and read length distributions
• Modified 'rsem-plot-model' to present alignment statistics better using both barplot and pie chart
• Updated 'EBSeq' to version 1.2.0
• Added coefficient of quartile variation in addition to credibility intervals when '--calc-ci' is turned on
• Added '--single-cell-prior' option to notify RSEM to use a sparse prior (Dir(0.1)) for single cell data; this option only makes sense if '--calc-pme' or '--calc-ci' is set

RSEM v1.2.23

• Moved version information from WHAT_IS_NEW to rsem_perl_utils.pm in order to make sure the '--version' option always output the version information
• Fixed a typo in 'rsem-calculate-expression' that can lead an error when '--star' is set and '--star-path' is not set
• Fixed a bug that can occasionally crash the RSEM simulator
• Added user-friendly error messages that are triggered when RSEM detects invalid bases in the input FASTA file during reference building

RSEM v1.2.22

Added options to run the STAR aligner.