Difference between revisions of "Applications/Minimap2"

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(Usage Examples)
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[username@login01 ~]$ module add minimap2/2.15
 
[username@login01 ~]$ module add minimap2/2.15
  
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</pre>
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===Batch Job===
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<!-- Example from: https://hpc.nih.gov/apps/minimap2.html -->
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<pre>
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#!/bin/bash
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#SBATCH -J minimap2job
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#SBATCH -p compute
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#SBATCH -n 4
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module purge
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module load minimap2/2.15
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minimap2 -ax map10k $MINIMAP2_HOME/test/MT-human.fa $MINIMAP2_HOME/test/MT-orang.fa > test.sam
 
</pre>
 
</pre>
  

Revision as of 10:42, 17 November 2022

Application Details

  • Description: Minimap2 is a versatile sequence alignment program that aligns DNA or mRNA sequences against a large reference database.
  • Version: 2.15
  • Modules: minimap2/2.15
  • Citing: If you use minimap2 in your work, please cite: Li, H. (2018). Minimap2: pairwise alignment for nucleotide sequences. Bioinformatics. doi:10.1093/bioinformatics/bty191

Usage Examples

Usage information can be found at https://github.com/lh3/minimap2


[username@login01 ~]$ module add minimap2/2.15

Batch Job

#!/bin/bash
#SBATCH -J minimap2job
#SBATCH -p compute
#SBATCH -n 4

module purge
module load minimap2/2.15

minimap2 -ax map10k $MINIMAP2_HOME/test/MT-human.fa $MINIMAP2_HOME/test/MT-orang.fa > test.sam

Further Information





Modules | Main Page | Further Topics