thank you for all this information. I have tested several combinations, both with and without --p-min-fold-parent-over-abundance. Which one do you think is best? Are these values acceptable?
these are the resultat without --p-min-fold-parent-over-abundance:
--p-trunc-len-f : 230 --p-trunc-len-r : 220 , --p-trim-left-f :5 , --p-trim-left-r :5 ---> denoising 0.01%
--p-trunc-len-f : 220 --p-trunc-len-r : 220 , --p-trim-left-f :5 , --p-trim-left-r :5 ---> denosing 0
--p-trunc-len-f : 240 --p-trunc-len-r : 230 , --p-trim-left-f :5 , --p-trim-left-r :5 ---> denosing 10
--p-trunc-len-f : 260 --p-trunc-len-r : 250 , --p-trim-left-f :10, --p-trim-left-r :10 ---> denosing 35
--p-trunc-len-f : 280 --p-trunc-len-r : 270 , --p-trim-left-f :10, --p-trim-left-r :10 ---> denosing 13
with --p-min-fold-parent-over-abundance
--p-trunc-len-f : 268 --p-trunc-len-r : 257 , --p-trim-left-f :5, --p-trim-left-r :5 , --p-min-fold-parent-over-abundance :8 --> denoising : 41
--p-trunc-len-f : 268 --p-trunc-len-r : 257 , --p-trim-left-f :5, --p-trim-left-r :5 , --p-min-fold-parent-over-abundance :12 --> denoising : 41.32
--p-trunc-len-f : 260 --p-trunc-len-r : 250 , --p-trim-left-f :5, --p-trim-left-r :5 , --p-min-fold-parent-over-abundance :16 --> denoising : 43
--p-trunc-len-f : 250 --p-trunc-len-r : 230 , --p-trim-left-f :5, --p-trim-left-r :5 , --p-min-fold-parent-over-abundance :16 --> denoising : 45
--p-trunc-len-f : 240 --p-trunc-len-r : 240 , --p-trim-left-f :0, --p-trim-left-r :0 , --p-min-fold-parent-over-abundance :16 --> denoising : 46
--p-trunc-len-f : 260 --p-trunc-len-r : 220 , --p-trim-left-f :0, --p-trim-left-r :0 , --p-min-fold-parent-over-abundance :16 --> denoising : 48
--p-trunc-len-f : 260 --p-trunc-len-r : 220 , --p-trim-left-f :0, --p-trim-left-r :0 , --p-min-fold-parent-over-abundance :16 --> denoising : 48
--p-trunc-len-f : 250 --p-trunc-len-r : 232 , --p-trim-left-f :0, --p-trim-left-r :0 , --p-min-fold-parent-over-abundance :16 --> denoising : 45
--p-trunc-len-f : 277 --p-trunc-len-r : 210 , --p-trim-left-f :0, --p-trim-left-r :0 , --p-min-fold-parent-over-abundance :16 --> denoising : 50
--p-trunc-len-f : 280 --p-trunc-len-r : 240 , --p-trim-left-f :5, --p-trim-left-r :5 , --p-min-fold-parent-over-abundance :16 --> denoising : 44
--p-trunc-len-f : 267 --p-trunc-len-r : 257 , --p-trim-left-f :5, --p-trim-left-r :5 , --p-min-fold-parent-over-abundance :16 --> denoising : 41
--p-trunc-len-f : 280 --p-trunc-len-r : 220 , --p-trim-left-f :5, --p-trim-left-r :5 , --p-min-fold-parent-over-abundance :16 --> denoising : 46
--p-trunc-len-f : 280 --p-trunc-len-r : 194 , --p-trim-left-f :5, --p-trim-left-r :5 , --p-min-fold-parent-over-abundance :16 --> denoising : 49
--p-trunc-len-f : 280 --p-trunc-len-r : 250 , --p-trim-left-f :5, --p-trim-left-r :5 , --p-min-fold-parent-over-abundance :16 --> denoising : 43
--p-trunc-len-f : 270 --p-trunc-len-r : 210 , --p-trim-left-f :5, --p-trim-left-r :5 , --p-min-fold-parent-over-abundance :16 --> denoising : 49