validates, filters, converts and performs various other operations on GFF files (use gffread -h to see the various usage options). Because the program shares the same GFF parser code with Cufflinks, Stringtie, and gffcompare, it could be used to verify that a GFF file from a certain annotation source is correctly "understood" by these programs. Thus the gffread utility can be used to simply read the transcripts from the file, and optionally print these transcripts back, in either GFF3 (default) or GTF2 format (with the -T option), while discarding any non-essential attributes, optionally fixing some potential issues with the input file(s).
InstallationUse the following command to install this title with the CLI client:
$ biogrids-cli install gffreadAvailable operating systems: Linux 64, OS X INTEL
Citation NotePlease cite the following url: https://ccb.jhu.edu/software/stringtie/gff.shtml#gffread
Linux 64:  0.11.6 (1.7 MB)
OS X INTEL:  0.11.6 (362.9 KB)
Linux 64:0.9.12 (564.7 KB)
OS X INTEL:0.9.12 (265.9 KB)