GRCm38

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/GRCm38/2023-04-26

Environment Variables

Variable Name

Value

GRCm38_fasta

/anvil/datasets/igenomes/Mus_musculus/Ensembl/GRCm38/Sequence/WholeGenomeFasta/genome.fa

GRCm38_bwa

/anvil/datasets/igenomes/Mus_musculus/Ensembl/GRCm38/Sequence/BWAIndex/version0.6.0/

GRCm38_bowtie2

/anvil/datasets/igenomes/Mus_musculus/Ensembl/GRCm38/Sequence/Bowtie2Index/

GRCm38_star

/anvil/datasets/igenomes/Mus_musculus/Ensembl/GRCm38/Sequence/STARIndex/

GRCm38_bismark

/anvil/datasets/igenomes/Mus_musculus/Ensembl/GRCm38/Sequence/BismarkIndex/

GRCm38_gtf

/anvil/datasets/igenomes/Mus_musculus/Ensembl/GRCm38/Annotation/Genes/genes.gtf

GRCm38_bed12

/anvil/datasets/igenomes/Mus_musculus/Ensembl/GRCm38/Annotation/Genes/genes.bed

GRCm38_readme

/anvil/datasets/igenomes/Mus_musculus/Ensembl/GRCm38/Annotation/README.txt

GRCm38_mito_name

MT

GRCm38_macs_gsize

1.87e9

GRCm38_HOME

/anvil/datasets/igenomes/Mus_musculus/Ensembl/GRCm38

RCAC_GRCm38_ROOT

/anvil/datasets/igenomes/Mus_musculus/Ensembl/GRCm38

RCAC_GRCm38_VERSION

2023-04-26