Sangjin Lee

icon location Senior Bioinformatics Scientist at PacBio

Results 5 comments of Sangjin Lee

Parameter for corrected PacBio reads ?

Hello @ptranvan and @fritzsedlazeck I was wondering if you guys were able to find a set of best parameters for either aligning the error-corrected reads or the new HiFi reads....

winnowmap PacBio CCS alignment

I will report back!

winnowmap PacBio CCS alignment

I can report that winnowmap map_pb parameter is slightly better than minimap2 asm20 parameter for the somatic mutations I am attempting to detect!

consensus-calling with arrow for contigs absent from all_p_ctg.fa but present in p_ctg.fa after falcon_unzip

I have also been able to observe a number of contigs that have significant changes to their sequences. I have uploaded a dotplot illustrating the example. The horizontal sequence is...

consensus-calling with arrow for contigs absent from all_p_ctg.fa but present in p_ctg.fa

I have also been able to observe a number of contigs that have significant changes to their sequences. I have uploaded a dotplot illustrating the example. The horizontal sequence is...