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--- bowtie-software [2014/10/17 07:50] – created joguya
+++ bowtie-software [2014/10/17 08:02] – joguya
@@ Line 47: / Line 47: @@
 prepend-path    PATH    ${exec_prefix}</code>
   * push the new module using ansible<code>ansible-playbook compute.yml --limit=compute --tags=modules -K</code>
+----
+===== Bowtie 2 =====
+  * Bowtie2 is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences.
+  * It is particularly good at aligning reads of about 50 up to 100s or 1,000s of characters, and particularly good at aligning to relatively long (e.g. mammalian) genomes.
+  * Bowtie2 indexes the genome with an FM Index to keep its memory footprint small: for the human genome, its memory footprint is typically around 3.2 GB.
+  * Bowtie2 supports gapped, local, and paired-end alignment modes.
+==== v 2.2.3 ====
+=== Usage ===
+  * show all versions of bowtie2<code>$ module avail bowtie2
+---------------------------------------------------------------------------------------------- /etc/modulefiles/ilri ----------------------------------------------------------------------------------------------
+bowtie2/2.1.0 bowtie2/2.2.2 bowtie2/2.2.3
+</code>
+  * load specific version, e.g. v2.2.3:<code>$ module load bowtie2/2.2.3</code>
+  * get help:<code>$ bowtie2 --help</code>