【4.3.2】真核基因识别--prodial

Prokaryotic Gene Prediction Program 下载prodial

cd /路径
prodial -a 生成文件 -i 输入文件 -m -o tmp.txt -p meta -q
sam@sam-Precision-WorkStation-T7500[sam] /sam/prodigal [ 4:22PM
Usage: prodigal [-a trans_file] [-c] [-d nuc_file] [-f output_type]
 [-g tr_table] [-h] [-i input_file] [-m] [-n] [-o output_file]
 [-p mode] [-q] [-s start_file] [-t training_file] [-v]
-a: Write protein translations to the selected file.
 -c: Closed ends. Do not allow genes to run off edges.
 -d: Write nucleotide sequences of genes to the selected file.
 -f: Select output format (gbk, gff, or sco). Default is gbk.
 -g: Specify a translation table to use (default 11).
 -h: Print help menu and exit.
 -i: Specify input file (default reads from stdin).
 -m: Treat runs of n's as masked sequence and do not build genes across
 them.
 -n: Bypass the Shine-Dalgarno trainer and force the program to scan
 for motifs.
 -o: Specify output file (default writes to stdout).
 -p: Select procedure (single or meta). Default is single.
 -q: Run quietly (suppress normal stderr output).
 -s: Write all potential genes (with scores) to the selected file.
 -t: Write a training file (if none exists); otherwise, read and use
 the specified training file.
 -v: Print version number and exit.