Man pages for celalp/ribofootprintR
Fast data extraction and visualization from .bam files for ribosome footprint profiling experiments
| generate_transcriptome | Generate transcriptome and genedf for alignment and analysis... |
| get_gene | Get coverage and ribosome occupancy of a gene by nucleotide |
| load_profiling_data | re-load pre-processed profiling data |
| metagene_bins | Divide ORF into bins and return either gene by gene or a... |
| metagene_cds | Get average ribosome footprint alignment values at the 5' and... |
| occupancy | Get ribosome occupancy at codon or amino acid level |
| phasing | Count the number of aligned reads per read length per frame |
| read_profiling_data | Read .bam files and pre-process them for further analysis |
| rrp | Calculate relative ribosome positioning |
| select_read_lengths | Select Relevant Read Lengths for the Profiling Library |
| smith | Ribosome profiling and RNA-Seq library from Smith et. al. |
| totals | Returns the total number of reads that map to an ORF and the... |
| write_profiling_data | Write profiling library list to file. |
