Difference between revisions of "Blast"
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Get module information for {{lc: {{PAGENAME}}}}: | Get module information for {{lc: {{PAGENAME}}}}: | ||
| − | $module spider {{#var:app}} | + | $module spider ncbi_{{#var:app}} |
{{#if: {{#var:intel}}|Load Intel compiler: {{#tag:pre|$module load intel/{{#var:intel}}}}|}}{{#if: {{#var:mpi}}|Load MPI implementation: {{#tag:pre|$module load {{#var:mpi}}}}|}} | {{#if: {{#var:intel}}|Load Intel compiler: {{#tag:pre|$module load intel/{{#var:intel}}}}|}}{{#if: {{#var:mpi}}|Load MPI implementation: {{#tag:pre|$module load {{#var:mpi}}}}|}} | ||
Load the application module: | Load the application module: | ||
| − | $module load {{#var:app}} | + | $module load ncbi_{{#var:app}} |
The modulefile for this software adds the directory with executable files to the shell execution PATH and sets the following environment variables: | The modulefile for this software adds the directory with executable files to the shell execution PATH and sets the following environment variables: | ||
Revision as of 20:46, 8 March 2012
Description
{{{name}}} website
The Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches. BLAST can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families. See Blast Program Selection Guide and the main blast website for more details.
Available Versions
- 2.2.24 - the last NCBI BLAST version that featured the "megablast" and the "blastall" programs. If you are using an older pipeline that requires those programs please use the ncbi_blast/2.2.24 module.
- 2.2.25 (default) - the current version of NCBI BLAST.
Running the application using modules
To use blast with the environment modules system at HPC the following commands are available:
Get module information for blast:
$module spider ncbi_blast
Load the application module:
$module load ncbi_blast
The modulefile for this software adds the directory with executable files to the shell execution PATH and sets the following environment variables:
HPC_BLAST_DIR - directory where blast is located.
BLAST databases
Follow the link to see the Information on the UF HPC provided BLAST databases.