Genomes

CARC provides a set of ready-to-use reference sequences and annotations for commonly analyzed organisms in a directory accessible from the Discovery and Endeavour clusters.

The reference genomes are sourced from iGenomes, a project by Illumina to provide ready-to-use genome assemblies and annotations from Ensembl, NCBI, and UCSC. Each genome directory contains index files of the whole genome for use with the BWA, Bowtie, and Bowtie2 aligners.

To access the genomes below, select the genome and format of your choice from the drop down list (you can type in the text box to filter the list), then select the index file, and finally, click the copy icon in text box to copy the on-disk location. You can then paste it in your submission scripts to use in your analysis.