RNASeq_1_bam Track Settings
 
RNASeq BAM file from file (merged alignments of all libraries)   (All Hints tracks)

Display mode:   

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:
View table schema
RNASeq_1

Description

This track shows RNA-Seq alignment information from a BAM-file that was used by BRAKER for predicting genes with AUGUSTUS.

Methods

The methods for generating RNA-Seq hints are described at the AUGUSTUS gene prediction track description page.

This tracks visualizes the file rnaseq.ss.bam.

Credits

The consortium for this project consists of:

  • Dannise V. Ruiz-Ramos (Department of Life and Environmental Sciences, 5200 North Lake Road, University of California, Merced, CA 95616, USA)
  • Lauren M. Schiebelhut (Department of Evolution and Ecology, One Shields Avenue, University of California, Davis, CA 95343, USA)
  • Katharina J. Hoff (University of Greifswald, Institute for Computer Science and Mathematics, Walther-Rathenau-Str. 47, 17487 Greifswald, Germany)
  • John P. Wares (Department of Genetics and the Odum School of Ecology, University of Georgia, Athens, GA, USA)
  • Michael N. Dawson (Department of Life and Environmental Sciences, 5200 North Lake Road, University of California, Merced, CA 95616, USA)

Contact for this track data hub: katharina.hoff@uni-greifswald.de