Gm01

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. Ensembl now uses the name ‘V1.0,’ for this assembly. SmallRNA annotation files were downloaded from miRBase release 21.

Usage

To find and load available datasets:

$ module avail
$ module load datasets
$ module load igenomes/Gm01/2023-04-26

Environment Variables

Variable Name

Value

Gm01_fasta

/anvil/datasets/igenomes/Glycine_max/Ensembl/Gm01/Sequence/WholeGenomeFasta/genome.fa

Gm01_bwa

/anvil/datasets/igenomes/Glycine_max/Ensembl/Gm01/Sequence/BWAIndex/version0.6.0/

Gm01_bowtie2

/anvil/datasets/igenomes/Glycine_max/Ensembl/Gm01/Sequence/Bowtie2Index/

Gm01_star

/anvil/datasets/igenomes/Glycine_max/Ensembl/Gm01/Sequence/STARIndex/

Gm01_bismark

/anvil/datasets/igenomes/Glycine_max/Ensembl/Gm01/Sequence/BismarkIndex/

Gm01_gtf

/anvil/datasets/igenomes/Glycine_max/Ensembl/Gm01/Annotation/Genes/genes.gtf

Gm01_bed12

/anvil/datasets/igenomes/Glycine_max/Ensembl/Gm01/Annotation/Genes/genes.bed

Gm01_readme

/anvil/datasets/igenomes/Glycine_max/Ensembl/Gm01/Annotation/README.txt

Gm01_HOME

/anvil/datasets/igenomes/Glycine_max/Ensembl/Gm01

RCAC_Gm01_ROOT

/anvil/datasets/igenomes/Glycine_max/Ensembl/Gm01

RCAC_Gm01_VERSION

2023-04-26