search

lbcb-sci / raven

De novo genome assembler for long uncorrected reads
MIT License
202 stars 21 forks source link

Adding coverage depth information in the GFA produced by Raven #74

Open jflot opened 1 year ago

jflot commented 1 year ago

Thanks for your great tool! In the GFA produced by Raven there are only two informations for each contig: LN (length of the contig) and RC (read count). What then happens when loading the GFA in Bandage is that the "coverage depth" displayed is RC/LN, which is a meaningless, very small number (e.g. 60/18412 = 0.003 for a 18412 bp contig supported by 60 reads). Would it be possible to add a DP field (like what e.g. Flye, Unicycler et SPAdes do) with the coverage depth information?

lipi0056 commented 1 year ago

We added dp tag to Raven GFA output. Please pull the latest version of the master branch and rebuild to activate.

jflot commented 1 year ago

Thanks! Any chance for the conda version to be updated as well?