Comments (2)
I noticed that most of the targets have a hit in Dfam Browse however my gff3 has 116933 rows, Is it possible to download the table of Dfam browse?
It is! If you choose the Caenorhabditis elegans
taxon and check both "Ancestors" and "Descendants", you will see the families RepeatMasker would have used in that search: https://www.dfam.org/browse?clade=6239&clade_ancestors=true&clade_descendants=true.
It sounds like you are mainly interested in the classification, which is included in the HMM and EMBL files. At this time we do not have an option to download in a tabular format like TSV, so I formatted and attached one here using RepeatMasker's class/subclass nomenclature:
celegans_classes.txt
For future reference, we also provide some other options for accessing Dfam data, including the HTTP API and the https://github.com/Dfam-consortium/FamDB/ tool and data files (Dfam.h5
).
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Closing due to inactivity. Please feel free to re-open or open a new issue if you have more questions!
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Related Issues (20)
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