===
EB1
===

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 'ASM1942v1, June 2008' for this assembly.

Usage
-----

To find and load available datasets::

    $ module avail
    $ module load datasets
    $ module load igenomes/EB1/2023-04-26
Environment Variables
-------------------

.. list-table::
   :header-rows: 1
   :widths: 25 75

   * - **Variable Name**
     - **Value**
   * - ``EB1_fasta``
     - ``/anvil/datasets/igenomes/Escherichia_coli_K_12_DH10B/Ensembl/EB1/Sequence/WholeGenomeFasta/genome.fa``
   * - ``EB1_bwa``
     - ``/anvil/datasets/igenomes/Escherichia_coli_K_12_DH10B/Ensembl/EB1/Sequence/BWAIndex/version0.6.0/``
   * - ``EB1_bowtie2``
     - ``/anvil/datasets/igenomes/Escherichia_coli_K_12_DH10B/Ensembl/EB1/Sequence/Bowtie2Index/``
   * - ``EB1_star``
     - ``/anvil/datasets/igenomes/Escherichia_coli_K_12_DH10B/Ensembl/EB1/Sequence/STARIndex/``
   * - ``EB1_bismark``
     - ``/anvil/datasets/igenomes/Escherichia_coli_K_12_DH10B/Ensembl/EB1/Sequence/BismarkIndex/``
   * - ``EB1_gtf``
     - ``/anvil/datasets/igenomes/Escherichia_coli_K_12_DH10B/Ensembl/EB1/Annotation/Genes/genes.gtf``
   * - ``EB1_bed12``
     - ``/anvil/datasets/igenomes/Escherichia_coli_K_12_DH10B/Ensembl/EB1/Annotation/Genes/genes.bed``
   * - ``EB1_readme``
     - ``/anvil/datasets/igenomes/Escherichia_coli_K_12_DH10B/Ensembl/EB1/Annotation/README.txt``
   * - ``EB1_HOME``
     - ``/anvil/datasets/igenomes/Escherichia_coli_K_12_DH10B/Ensembl/EB1``
   * - ``RCAC_EB1_ROOT``
     - ``/anvil/datasets/igenomes/Escherichia_coli_K_12_DH10B/Ensembl/EB1``
   * - ``RCAC_EB1_VERSION``
     - ``2023-04-26``