jcleple33

Dear Liz, Yes the issue is fixed. However I obtain other errors for the last 9 clusters. I have tried with k 60, 80 and 120 and I got these...

> Closed unless further information given. Hi! Sorry to be so late in my answer. Yes I send you my email : [email protected] Thanks in advance JC

I have tried with version 6.0.0 and the reconstruction completed with reconstruct_contig.py --nx_cycle_detection -k 60 ccs_APMX/1567_11137 ( mem 10G and 10 cpu). So, may be a bug has been introduced...

Hi Liz, Indeed, increasing k enable to reconstruct most of the clusters. However for a few of them I am not sure to succeed. Below I indicate k values that...

Hi Liz I checked the transcripts and your are right, homopolymer seems important. in cluster 55816_70 I found 50% of sequences carrying LTR so may be TEs... But what can...

other cluster [89607_63.zip](https://github.com/Magdoll/Cogent/files/5245661/89607_63.zip)

other cluster [10040_489.zip](https://github.com/Magdoll/Cogent/files/5245666/10040_489.zip)

and the last one [1567_24.zip](https://github.com/Magdoll/Cogent/files/5245670/1567_24.zip)