EquCab2

Version: 2023-04-26

Category: igenomes

Description

The contents of the annotation directories were downloaded from Ensembl on: July 17, 2015.

Gene annotation files were downloaded from Ensembl release 81. SmallRNA annotation files were downloaded from miRBase release 21.

Usage

To find and load available datasets:

$ module avail
$ module load datasets
$ module load igenomes/EquCab2/2023-04-26

Environment Variables

Variable Name

Value

EquCab2_fasta

/anvil/datasets/igenomes/Equus_caballus/Ensembl/EquCab2/Sequence/WholeGenomeFasta/genome.fa

EquCab2_bwa

/anvil/datasets/igenomes/Equus_caballus/Ensembl/EquCab2/Sequence/BWAIndex/version0.6.0/

EquCab2_bowtie2

/anvil/datasets/igenomes/Equus_caballus/Ensembl/EquCab2/Sequence/Bowtie2Index/

EquCab2_star

/anvil/datasets/igenomes/Equus_caballus/Ensembl/EquCab2/Sequence/STARIndex/

EquCab2_bismark

/anvil/datasets/igenomes/Equus_caballus/Ensembl/EquCab2/Sequence/BismarkIndex/

EquCab2_gtf

/anvil/datasets/igenomes/Equus_caballus/Ensembl/EquCab2/Annotation/Genes/genes.gtf

EquCab2_bed12

/anvil/datasets/igenomes/Equus_caballus/Ensembl/EquCab2/Annotation/Genes/genes.bed

EquCab2_readme

/anvil/datasets/igenomes/Equus_caballus/Ensembl/EquCab2/Annotation/README.txt

EquCab2_mito_name

MT

EquCab2_HOME

/anvil/datasets/igenomes/Equus_caballus/Ensembl/EquCab2

RCAC_EquCab2_ROOT

/anvil/datasets/igenomes/Equus_caballus/Ensembl/EquCab2

RCAC_EquCab2_VERSION

2023-04-26