Hi,
For most cases, IVA works great for flu samples but sometimes, if the depth is not very high (<50x), a segment (usually PB2) is completely missing in the contigs results. I have been playing with --seed_ext_min_cov 1 --seed_min_kmer_cov 10 and seems to work. Anyway, is it a good idea to set the --seed_ext_min_cov 1?
Thanks
Hi, For most cases, IVA works great for flu samples but sometimes, if the depth is not very high (<50x), a segment (usually PB2) is completely missing in the contigs results. I have been playing with
--seed_ext_min_cov 1 --seed_min_kmer_cov 10and seems to work. Anyway, is it a good idea to set the --seed_ext_min_cov 1? Thanks