Ribosome profiling viewer
GetProteinCodingSequence -i -c -o -mode whole -table 1 Prepare the sequence file for the longest transcripts.The transcripts_sequence.fa was generated by prepare_trascripts, A function of RiboCode. And the containing annotation infomation of all transcripts. This step would generated two files, one is the, containing annotation infomation of the longest transcripts of all protein coding genes. Prepare the longest transcript annotaion files.Transcripts_sequence.fa: transcript sequences containing all protein coding transcripts. This would generate a directory named RiboCode_annot, containing some annotation file, for example: transcripts_cds.txt: coordinate file containing transcripts of all protein coding genes.
#Ribosome profiling viewer manuals
Details please see the manuals of RiboCode. The prepare_transcripts is a function of RiboCode, which is used for generated annoation files on transcriptome level.
![ribosome profiling viewer ribosome profiling viewer](https://rnajournal.cshlp.org/content/20/10/1507/F1.large.jpg)
Metagene Analysis (MA): Metagene analysis among different samples to find possible ribosome stalling events.Quality Control (QC): Quality control for ribosome profiling data, containing periodicity checking, reads distribution among different reading frames,length distribution of ribosome footprints and DNA contaminations.The RiboMiner is a python toolset for mining multi-dimensional features of the translatome with ribosome profiling data.