Pyicos is a toolkit for the analysis of high-throughput sequencing data. It is designed to be flexible. It can be used in several ways:
Pyicos can be used for the analysis of different kinds of data. The analysis starts with the genomic position of the reads, so after the sequences have been mapped to the reference genome. Pyicos offers basic operations (extending reads, subtracting a control, etc.) as well as protocol files (combination of the operations in typical workflows) to analyse for example ChIP-Seq, RNA-Seq or CLIP-Seq data.
If you have any problems or suggestions please join the Pyicos Google Group and ask!