To see how to create this alias file, see Creating a Chromosome Name Alias File in the IGV User Guide.
Follow the steps here to upload your genome to your server and configure it for sharing. For help selecting the best file format, see File Formats.
The most common cause for this is a mismatch in the sequence (chromosome) names between the annotation file (e.g., GFF or BED) and FASTA files.
Among the bug fixes is #1764 - Correctly honor nuke_limit parameter.To see how to create this alias file, see Creating a Chromosome Name Alias File in the IGV User Guide. The most common causes for this are the two problems noted above for loading BAM files, and attempting to compute coverage on an unsorted file.Import the genome or contact the igv-help forum and request that it be added.It can also recombine tiles to work with regular WMS clients.This User Manual is a guide to the most common aspects of Geo Web Cache.