gtfToGenePred软件的安装

 

1、下载地址：http://hgdownload.soe.ucsc.edu/admin/exe/linux.x86_64/

 

2、赋予权限

root@DESKTOP-1N42TVH:/home/software# ll -h
total 34M
drwxr-xr-x  4 root root 4.0K Apr 30 00:01 ./
drwxr-xr-x  7 root root 4.0K Apr 27 23:38 ../
-rw-r--r--  1 root root  34M Apr 30 00:01 gtfToGenePred
drwxr-xr-x 12 root root 4.0K Apr 27 23:56 picard/
drwxr-xr-x  2 root root 4.0K Apr 29 16:20 plink/
root@DESKTOP-1N42TVH:/home/software# chmod 755 gtfToGenePred
root@DESKTOP-1N42TVH:/home/software# ll -h
total 34M
drwxr-xr-x  4 root root 4.0K Apr 30 00:01 ./
drwxr-xr-x  7 root root 4.0K Apr 27 23:38 ../
-rwxr-xr-x  1 root root  34M Apr 30 00:01 gtfToGenePred*
drwxr-xr-x 12 root root 4.0K Apr 27 23:56 picard/
drwxr-xr-x  2 root root 4.0K Apr 29 16:20 plink/
root@DESKTOP-1N42TVH:/home/software# ./gtfToGenePred
gtfToGenePred - convert a GTF file to a genePred
usage:
   gtfToGenePred gtf genePred

options:
     -genePredExt - create a extended genePred, including frame
      information and gene name
     -allErrors - skip groups with errors rather than aborting.
      Useful for getting infomation about as many errors as possible.
     -ignoreGroupsWithoutExons - skip groups contain no exons rather than
      generate an error.
     -infoOut=file - write a file with information on each transcript
     -sourcePrefix=pre - only process entries where the source name has the
      specified prefix.  May be repeated.
     -impliedStopAfterCds - implied stop codon in after CDS
     -simple    - just check column validity, not hierarchy, resulting genePred may be damaged
     -geneNameAsName2 - if specified, use gene_name for the name2 field
      instead of gene_id.
     -includeVersion - it gene_version and/or transcript_version attributes exist, include the version
      in the corresponding identifiers.

没有问题。