Sscrofa10.2

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/Sscrofa10.2/2023-04-26

Environment Variables

Variable Name

Value

Sscrofa102_fasta

/anvil/datasets/igenomes/Sus_scrofa/Ensembl/Sscrofa10.2/Sequence/WholeGenomeFasta/genome.fa

Sscrofa102_bwa

/anvil/datasets/igenomes/Sus_scrofa/Ensembl/Sscrofa10.2/Sequence/BWAIndex/version0.6.0/

Sscrofa102_bowtie2

/anvil/datasets/igenomes/Sus_scrofa/Ensembl/Sscrofa10.2/Sequence/Bowtie2Index/

Sscrofa102_star

/anvil/datasets/igenomes/Sus_scrofa/Ensembl/Sscrofa10.2/Sequence/STARIndex/

Sscrofa102_bismark

/anvil/datasets/igenomes/Sus_scrofa/Ensembl/Sscrofa10.2/Sequence/BismarkIndex/

Sscrofa102_gtf

/anvil/datasets/igenomes/Sus_scrofa/Ensembl/Sscrofa10.2/Annotation/Genes/genes.gtf

Sscrofa102_bed12

/anvil/datasets/igenomes/Sus_scrofa/Ensembl/Sscrofa10.2/Annotation/Genes/genes.bed

Sscrofa102_readme

/anvil/datasets/igenomes/Sus_scrofa/Ensembl/Sscrofa10.2/Annotation/README.txt

Sscrofa102_mito_name

MT

Sscrofa10.2_HOME

/anvil/datasets/igenomes/Sus_scrofa/Ensembl/Sscrofa10.2

RCAC_Sscrofa10.2_ROOT

/anvil/datasets/igenomes/Sus_scrofa/Ensembl/Sscrofa10.2

RCAC_Sscrofa10.2_VERSION

2023-04-26