CASHX annotation pipeline

Fahlgren, et al. recently reported an annotation pipeline called  Cache ASsisted Hash Search with Xor logic (CASHX) in the journal RNA (PubMed ID 19307293). The pipeline can map, quantify and manage large quantities of sequence data. The sequence alignments can be done using any size of DNA sequence data for both query sequences and database. The tools in the pipeline were built using a modular approach that allow the programs to be used together or separately giving the end researcher flexibly to change or add to the pipeline as needed. The CASHX is available from http://jcclab.science.oregonstate.edu/cashx. The Pipeline was created by the Jim Carrington Lab at Oregon State University.