Collapsed Iso-Seq Transcripts Track Settings

Non-redundant Transcripts Derived from Clustered Iso-Seq Reads (All PacBio Iso-Seq Tracks)

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Minimum Number of CCS reads associated with isoform (fl_assoc):
Minimum Number of clustered transcripts associated with isoform (count_fl):

Display data as a density graph:

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Data last updated at UCSC: 2022-10-12 12:25:49

Description

Polished transcripts derived from clustered Full-Length Non-Chimeric (FLNC) PacBio Iso-Seq reads were aligned against the D. ananassae DanaRefSeq2 genome assembly using the pbmm2 wrapper for minimap2. Redundant transcripts were collapsed into unique isoforms using the collapse command with the --do-not-collapse-extra-5exons option in IsoSeq v3.

The color of each feature corresponds to the number of Circular Consensus Sequencing (CCS) reads which support the polished transcript:

Color	Number of CCS reads (fl_assoc)
	> 1000
	500-999
	100-499
	50-99
	10-49
	< 10

The PacBio Iso-Seq data were produced by Chinmay P. Rele from the Reed Lab at The University of Alabama.

References

Li H. New strategies to improve minimap2 alignment accuracy. Bioinformatics. 2021 Oct 8;37(23):4572-4. doi: 10.1093/bioinformatics/btab705.