- Allowed for a subset of reference sequences to be declared in an input SAM/BAM file
- For any transcript not declared in the SAM/BAM file, its PME estimates and credibility intervals are set to zero
- Added advanced options for customizing Gibbs sampler and credibility interval calculation behaviors
-- Splitted options in 'rsem-calculate-expression' into basic and advanced options;
+- Splitted options in 'rsem-calculate-expression' into basic and advanced options
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