susScr3

Version: 2023-04-26

Category: igenomes

Description

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

SmallRNA annotation files were downloaded from miRBase release 21.

Usage

To find and load available datasets:

$ module avail
$ module load datasets
$ module load igenomes/susScr3/2023-04-26

Environment Variables

Variable Name

Value

susScr3_fasta

/anvil/datasets/igenomes/Sus_scrofa/UCSC/susScr3/Sequence/WholeGenomeFasta/genome.fa

susScr3_bwa

/anvil/datasets/igenomes/Sus_scrofa/UCSC/susScr3/Sequence/BWAIndex/version0.6.0/

susScr3_bowtie2

/anvil/datasets/igenomes/Sus_scrofa/UCSC/susScr3/Sequence/Bowtie2Index/

susScr3_star

/anvil/datasets/igenomes/Sus_scrofa/UCSC/susScr3/Sequence/STARIndex/

susScr3_bismark

/anvil/datasets/igenomes/Sus_scrofa/UCSC/susScr3/Sequence/BismarkIndex/

susScr3_gtf

/anvil/datasets/igenomes/Sus_scrofa/UCSC/susScr3/Annotation/Genes/genes.gtf

susScr3_bed12

/anvil/datasets/igenomes/Sus_scrofa/UCSC/susScr3/Annotation/Genes/genes.bed

susScr3_readme

/anvil/datasets/igenomes/Sus_scrofa/UCSC/susScr3/Annotation/README.txt

susScr3_mito_name

chrM

susScr3_HOME

/anvil/datasets/igenomes/Sus_scrofa/UCSC/susScr3

RCAC_susScr3_ROOT

/anvil/datasets/igenomes/Sus_scrofa/UCSC/susScr3

RCAC_susScr3_VERSION

2023-04-26