Timeline for Using very closely related strains to increase coverage for short read, de novo assembly
Current License: CC BY-SA 4.0
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| Nov 9, 2022 at 17:56 | comment | added | Maximilian Press | @bishopia I would say that if you have HiFi contigs, go with those! You are not going to improve them by adding a bunch of heterogeneous shotgun Illumina data, as you seem to have inferred. | |
| Nov 8, 2022 at 13:40 | comment | added | bishopia | Thanks for your thoughts. I actually do have PacBio HiFi contigs as well, but hybrid assembly efforts have only gotten me so far (tho much higher N50 than you mention, which is nice). Also not in position to continue sequencing :( I'm sorry if this is too speculative for this forum, I've just never seen anyone publicly entertain this notion. I think i agree that broader rearrangement patterns will likely hurt more than the process might help. | |
| Nov 8, 2022 at 5:07 | history | answered | Maximilian Press | CC BY-SA 4.0 |