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. |
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