Ribosome P-site localization software tools | Ribo-seq data analysis
Optimal localization of ribosomes requires the proper identification of the ribosome P-site in each ribosome protected fragment, a crucial step to determine trinucleotide periodicity of translating ribosomes, and draw correct conclusions concerning where ribosomes are located.
Offers a collection of tools for Ribo-seq data analysis. RiboProfiling provides a unique, straightforward R implementation of a ribosome profiling pipeline from BAM, to P-site calibration, quantification of reads on sequence features, and codon coverage. The packages’ graphical features offer quality assessment and result representation across the analyses. Following the overview of Ribo-seq experiments with ’RiboProfiling, the output tables can then be easily integrated into more specialized dowstream analyses.
Computes the P-site Offset (PO) for all reads from single or multiple RiboSeq samples. riboWaltz provides the user with a variety of graphical representations, laying the foundations for further accurate RiboSeq analyses and better interpretation of positional information. It uses reads aligning across annotated translation initiation sites to identify P-site. This tool is able to assist with the detailed interrogation of RiboSeq data at single nucleotide resolution.