Sadnaruwan Ratnayake comments

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                                            Sadnaruwan Ratnayake

error: empty overlap set! and multiple consusnses sequnces

Hello Robert, 1) Both .paf and .sam files are not empty files. 2) TAIR10_chr_all.fasta is a genome file of Arabidopsis. It has five contigs. Following are the length of each...

error: empty overlap set! and multiple consusnses sequnces

It varies. The mean length of some are 250 bp, 950bp 1.1kb, basically I have different clusters from 250bp to 2.5 kb

error: empty overlap set! and multiple consusnses sequnces

I obtained clusters based on UMIs, I have used https://github.com/fhlab/UMIC-seq to get the clusters. But https://github.com/SorenKarst/longread_umi/blob/master/scripts/consensus_racon.sh have used racon to get consensus sequences from clusters. I will try spoa instead...