Brie: Bayesian regression for isoform estimate
Project description
About Brie
Brie (Bayesian regression for isoform estimate) is a Bayesian method to estimate isoform proportions. Bayesian methods, e.g., MISO, DICEseq, have been shown great success in isoform estimate, but good prior is hard to define. Brie use a Baysian regression to transform the regulatory features of splicing into a prior for isoform estimate. These features could be genetic motifs or epigenetic modification.
Brie provides following functions through command line:
brie: Estimate isoform proportions and FPKM, and calculate weights for regulatory features.
splicing-event: Extract the splicing events from full gff3/gtf/ucsc table.
genetic-feature: Fetch genentic feature from reference sequence in fasta file.
histone-feature: Fetch epigenetic feature of histone modifications in bam file.
More information
See the documentation on how to install, to use, to find the annotation data etc.
References
Coming soon
