[maker-devel] gff file: possible sources

[Qihua Liang]

Hi Maker develop team!

I am trying to figure the second column of gff file generated by maker, which should be the source of this annotation. Besides of what the tutorial lists as,

Possible Sources Include:
BLASTN - BLASTN alignment of EST evidence
BLASTX - BLASTX alignment of protein evidence
TBLASTX - TBLASTX alignment of EST evidence from closely related organisms
EST2Genome - Polished EST alignment from Exonerate
Protein2Genome - Polished protein alignment from Exonerate
SNAP - SNAP ab inito gene prediction
GENEMARK - GeneMarkab inito gene prediction
Augustus - Augustus ab inito gene prediction
FgenesH - FGENESH ab inito gene prediction
Repeatmasker - RepeatMasker identified repeat
RepeatRunner - RepeatRunner identified repeat from the repeat protein database
tRNAScan - tRNAScan-SE tRNA predictions (coming soon)
PASA - PASA gene predictions (coming soon)

There are other sources that I noticed from my gff file, like cdna2genome. Is there any other detailed documentation explaining such sources besides of those listed above?

Thanks
Qihua

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