GRCh38 Synteny Track Settings
 
GRCh38 Cactus Synteny   (All Comparative Genomics tracks)

Display mode:       Reset to defaults

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


Display data as a density graph:
List subtracks: only selected/visible    all  
dense
 Configure 		 GRCh38 Synteny 25KB  GRCh38 Cactus Synteny 25KB resolution   Schema 
dense
 Configure 		 GRCh38 Synteny 1MB  GRCh38 Cactus Synteny 1MB resolution   Schema 

Description

Synteny annotations relative to GRCh38 produce from the Cactus alignments.

Methods

These are build the Cactus HAL file with 25 kilobase and 1 megabase resolution. The 25kb track uses a maximum anchor distance of 25kb, while the 1 megabase track uses a 50kb block size.

Display Conventions and Configuration

These are alignment tracks using the PSL display conventions

Data access

Release history

  1. 2020-09-04 for 20200727

Contacts

Credits

Krasheninnikova K, Diekhans M, Armstrong J, Dievskii A, Paten B, O'Brien S. halSynteny: a fast, easy-to-use conserved synteny block construction method for multiple whole-genome alignments. Gigascience. 2020;9(6):giaa047. PMID: 32463100 PMCID: PMC7254927 DOI: 10.1093/gigascience/giaa047