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EJCCMTools is a Java software package for compression of SAM or BAM files, performing subsequent gene or transcript expression profiling and visualizing gene read coverage profiles. This novel compression scheme reduces file size by a factor of 214 compared to BAM files while keeping the full ability to analyze and visualize gene and isoform expression levels. As a result of the compression EJCCM files are generated. These files can be indexed and queried using Tabix.
Features
- RNASeq data compression based on SAM/BAM files
- Gene expression profiling
- Transcript expression profiling
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