13. Downloads

Warning

Since 2020, none of the internal links are functioning. Please use the Dropbox links.

13.1. Tools

• Miniconda installer [ EXTERNAL ]

• Minikraken database [ EXTERNAL ]

• Centrifuge database [ EXTERNAL ]

• Krona taxonomy database [ INTERNAL | DROPBOX ]

• SolexaQA++ [ EXTERNAL | INTERNAL | DROPBOX ]

• BUSCO Saccharomycetales_odb9 database [ EXTERNAL | INTERNAL | DROPBOX ]

• IGV [ EXTERNAL | INTERNAL | DROPBOX ]

• RAxML-NG [ EXTERNAL | INTERNAL | DROPBOX ]

13.2. Data

• Quality control: Raw data-set [ INTERNAL | DROPBOX ]

• Quality control: Trimmed data-set [ INTERNAL | DROPBOX ]

• Genome assembly: Assembled data-set [ INTERNAL | DROPBOX ]

• Read mapping: Mapping index (bowtie2) [ INTERNAL | DROPBOX ]

• Read mapping: Mapping index (bwa) [ INTERNAL | DROPBOX ]

• Read mapping: Mapped data [ INTERNAL | DROPBOX ]

• Genome annotation: GFF annotation file [ INTERNAL | DROPBOX ]

• Orthology and Phylogeny: S. cerevisiase TEF2 gene file [ INTERNAL | DROPBOX ]

• Orthology and Phylogeny: BLAST file [ INTERNAL | DROPBOX ]

• Variants-of-interest: SnpEff annotated vcf-file [ INTERNAL | DROPBOX ]

13.3. Tutorial

• A PDF version of this tutorial is available here.