Filter based on minimum horizontal coverage

[ntromas]

Hi!

Is there a way to filter output based on minimum horizontal coverage? To validate that the reads covered most of the genome (instead of one part if the MAGs is potentially a chimera...)

Cheers,

Nico

[wwood]

Hi, Do you mean covered_fraction? Or something else? I'm not sure what horizontal coverage is sorry. ben

[ntromas]

Hi Ben, Sorry for the confusion. I mean breadth. I guess the output option "covered_bases" might help. I initially thought that breadth was the parameter --min-covered-fraction. Nico Le sam. 13 janv. 2024 06 h 50, Ben J Woodcroft ***@***.***> a écrit :

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Hi, Do you mean covered_fraction? Or something else? I'm not sure what horizontal coverage is sorry. ben — Reply to this email directly, view it on GitHub <#195 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ABY5D6GKTETTA6IWINM3GF3YOJYI5AVCNFSM6AAAAABBYWKNVCVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMYTQOJQGQZDSMZQG4> . You are receiving this because you authored the thread.Message ID: ***@***.***>