Marcus Tutert comments

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                                            Marcus Tutert

isoseq refine

Hi, thank you for your very quick response! I'm not sure I'll be able to upload a bam due to data governance/restrictions but let me see what I can do....

>|> 20240321 19:54:37.853 -|- INFO -|- ParsePositionalArgs -|- 0x7fb0766860c0|| -|- Input Barcode file: /lustre/scratch126/humgen/projects/isogut/qc/primers.fasta >|> 20240321 19:54:37.853 -|- INFO -|- Runner -|- 0x7fb0766860c0|| -|- Primer prefixes used to detect concatemers:...

isoseq refine

Here is the contents of my fasta file too (comes from the 10x 3' chemistry that is available on the isoseq website) >5p AAGCAGTGGTATCAACGCAGAGTACATGGG >3p AGATCGGAAGAGCGTCGTGTAG

isoseq refine

And my reports: id,strand,fivelen,threelen,polyAlen,insertlen,primer m84093_240202_144742_s1/263197381/ccs,+,0,8,25,477,5p--3p m84093_240202_144742_s1/219156810/ccs,+,8,0,28,1451,5p--3p m84093_240202_144742_s1/204345334/ccs,+,8,0,25,1561,5p--3p m84093_240202_144742_s1/123997463/ccs,+,0,8,31,1619,5p--3p m84093_240202_144742_s1/112922188/ccs,+,0,8,41,375,5p--3p m84093_240202_144742_s1/109251907/ccs,+,0,9,31,2371,5p--3p m84093_240202_144742_s1/91559779/ccs,+,0,8,27,786,5p--3p m84093_240202_144742_s1/92542161/ccs,+,0,8,26,1685,5p--3p m84093_240202_144742_s1/75962115/ccs,+,8,0,26,1060,5p--3p m84093_240202_144742_s1/87888614/ccs,+,7,8,102,532,5p--3p m84093_240202_144742_s1/46536294/ccs,+,8,0,28,1906,5p--3p m84093_240202_144742_s1/25367936/ccs,+,8,0,29,1614,5p--3p m84093_240202_144742_s1/34669647/ccs,+,0,8,60,587,5p--3p m84093_240202_144742_s1/35783133/ccs,+,0,8,29,1043,5p--3p m84093_240202_144742_s1/65668734/ccs,+,8,0,31,1578,5p--3p m84093_240202_144742_s1/118557153/ccs,+,8,0,74,1614,5p--3p m84093_240202_144742_s1/119408775/ccs,+,0,8,27,847,5p--3p m84093_240202_144742_s1/111478958/ccs,+,8,0,22,1484,5p--3p m84093_240202_144742_s1/174523972/ccs,+,8,0,45,2187,5p--3p { "_comment": "Created by pbcopper v2.3.99", "attributes":...