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Old 02-06-2017, 06:37 AM   #1
g3n3
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Location: Hawaii

Join Date: Jan 2013
Posts: 6
Default AlignQC - Long-read alignment quality reporting software

Hello all, I haven't started many threads so please redirect me to the right place if I'm not supposed to self-promote here, or there is a tools introduction sharing. I confess I mostly just lurk her and dip in when I need help.

Our group works with transcriptome data from ONT and and PacBio long reads we've done a comparison of the technologies and made a software that is useful for accessing qualities of alignments such as:
  • Alignment rates vs read length
  • Full-length or partial coverage of annotated transcripts
  • Error rates and patterns

The software is here:
https://www.healthcare.uiowa.edu/lab...QC/default.asp

Or if you'd like to take a look at the paper:
Weirather JL, de Cesare M, Wang Y et al. Comprehensive comparison of Pacific Biosciences and Oxford Nanopore Technologies and their applications to transcriptome analysis [version 1; referees: awaiting peer review]. F1000Research 2017, 6:100 (doi: http://dx.doi.org/10.12688/f1000research.10571.1 )
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long reads, oxford nanopore, pacbio, quality check

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