ORF_all.sh is a script integrated with Python scripts. This script sequentially truncates the N-terminal sequence preceding each methionine in the FPS, generates a series of redundant proteins termed ORF_shift proteins, removes protein sequences shorter than 20 amino acids, merges duplicate sequences, predicts endogenous secretory proteins using SignalP v5.0b, extracts the resulting hit sequence to obtain the OSPS, and merges the OSPS with the FPS to obtain the SPS.
Usage: Place the FPS named “filtered_transcript_all.table” in the same directory as ORF_all.sh, and run the following command in the Linux terminal: “bash ORF_all.sh”. The final output file is OSPS named “filtered_ORF_signal.table” and FPS named “Search_file.table” in the OUT folder.
ORF_all.sh
ORF_all.sh is a script integrated with Python scripts. This script sequentially truncates the N-terminal sequence preceding each methionine in the FPS, generates a series of redundant proteins termed ORF_shift proteins, removes protein sequences shorter than 20 amino acids, merges duplicate sequences, predicts endogenous secretory proteins using SignalP v5.0b, extracts the resulting hit sequence to obtain the OSPS, and merges the OSPS with the FPS to obtain the SPS.
Usage: Place the FPS named “filtered_transcript_all.table” in the same directory as ORF_all.sh, and run the following command in the Linux terminal: “bash ORF_all.sh”. The final output file is OSPS named “filtered_ORF_signal.table” and FPS named “Search_file.table” in the OUT folder.