TAIR10

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 EnsemblGenomes release 27. SmallRNA annotation files were downloaded from miRBase release 21.

Usage

To find and load available datasets:

$ module avail
$ module load datasets
$ module load igenomes/TAIR10/2023-04-26

Environment Variables

Variable Name

Value

TAIR10_fasta

/anvil/datasets/igenomes/Arabidopsis_thaliana/Ensembl/TAIR10/Sequence/WholeGenomeFasta/genome.fa

TAIR10_bwa

/anvil/datasets/igenomes/Arabidopsis_thaliana/Ensembl/TAIR10/Sequence/BWAIndex/version0.6.0/

TAIR10_bowtie2

/anvil/datasets/igenomes/Arabidopsis_thaliana/Ensembl/TAIR10/Sequence/Bowtie2Index/

TAIR10_star

/anvil/datasets/igenomes/Arabidopsis_thaliana/Ensembl/TAIR10/Sequence/STARIndex/

TAIR10_bismark

/anvil/datasets/igenomes/Arabidopsis_thaliana/Ensembl/TAIR10/Sequence/BismarkIndex/

TAIR10_gtf

/anvil/datasets/igenomes/Arabidopsis_thaliana/Ensembl/TAIR10/Annotation/Genes/genes.gtf

TAIR10_bed12

/anvil/datasets/igenomes/Arabidopsis_thaliana/Ensembl/TAIR10/Annotation/Genes/genes.bed

TAIR10_readme

/anvil/datasets/igenomes/Arabidopsis_thaliana/Ensembl/TAIR10/Annotation/README.txt

TAIR10_mito_name

Mt

TAIR10_HOME

/anvil/datasets/igenomes/Arabidopsis_thaliana/Ensembl/TAIR10

RCAC_TAIR10_ROOT

/anvil/datasets/igenomes/Arabidopsis_thaliana/Ensembl/TAIR10

RCAC_TAIR10_VERSION

2023-04-26