Clustered Iso-Seq Reads Track Settings
 
Alignments of Clustered Iso-Seq Reads   (All PacBio Iso-Seq Tracks)

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Display read names
Minimum alignment quality:

Color track by bases: Help on base coloring

Alignment Gap/Insertion Display Options Help on display options
Draw double horizontal lines when both genome and query have an insertion
Draw a vertical purple line for an insertion at the beginning or end of the
query, orange for insertion in the middle of the query
Draw a vertical green line where query has a polyA tail insertion

Additional coloring modes:
Color by strand (blue for +, red for -)
Use gray for
Use R,G,B colors specified in user-defined tag
No additional coloring

Display data as a density graph:

BAM configuration help

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Description

Full-Length Non-Chimeric (FLNC) PacBio Iso-Seq reads from D. ananassae were clustered and polished using the cluster command in IsoSeq v3. The polished isoforms were aligned against the D. ananassae DanaRefSeq2 genome assembly using the pbmm2 wrapper for minimap2.

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.