BLAST+-Sapelo2 - Revision history

Shtsai at 00:05, 5 April 2026

2026-04-05T00:05:18Z

← Older revision		Revision as of 20:05, 4 April 2026
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	[[Category:Sapelo2]][[Category:Software]][[Category:Bioinformatics]]		[[Category:Sapelo2]][[Category:Software]][[Category:Bioinformatics]]
	=== Category ===		== Category ==

	Bioinformatics		Bioinformatics

	=== Program On ===		== Program On ==

	Sapelo2		Sapelo2

	=== Version ===		== Version ==
	<!--		<!--
	2.2.31, 2.10.1, 2.11.0, 2.12.0, 2.13.0, 2.14.0		2.2.31, 2.10.1, 2.11.0, 2.12.0, 2.13.0, 2.14.0
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	2.13.0, 2.14.1, 2.16.0		2.13.0, 2.14.1, 2.16.0

	=== Author / Distributor ===		== Author / Distributor ==

	[http://www.ncbi.nlm.nih.gov/ NCBI]		[http://www.ncbi.nlm.nih.gov/ NCBI]

	=== Description ===		== Description ==

	Basic Local Alignment Search Tool, or BLAST, is an algorithm for comparing primary biological sequence information, such as the amino-acid sequences of different proteins or the nucleotides of DNA sequences. More information: http://blast.ncbi.nlm.nih.gov/		Basic Local Alignment Search Tool, or BLAST, is an algorithm for comparing primary biological sequence information, such as the amino-acid sequences of different proteins or the nucleotides of DNA sequences. More information: http://blast.ncbi.nlm.nih.gov/

	=== Running Program ===		== Running Program ==

	Also refer to [[Running Jobs on Sapelo2]]		Also refer to [[Running Jobs on Sapelo2]]
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	blastn -num_threads 8 -query example.fasta -out results.out -db nt		blastn -num_threads 8 -query example.fasta -out results.out -db nt
	</pre>		</pre>
	=== Documentation ===
			== Documentation ==
	[[#blastn\| jump to blastn]]; [[#blastp\| jump to blastp]]; [[#blastx\| jump to blastx]]; [[#makeblastdb\| jump to makeblastdb]]; [[#top\|Back to Top]]		[[#blastn\| jump to blastn]]; [[#blastp\| jump to blastp]]; [[#blastx\| jump to blastx]]; [[#makeblastdb\| jump to makeblastdb]]; [[#top\|Back to Top]]

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	[[#top\|Back to Top]]		[[#top\|Back to Top]]

	=== Installation ===		== Installation ==

	Source code is obtained from [http://blast.ncbi.nlm.nih.gov/ BLAST+]		Source code is obtained from [http://blast.ncbi.nlm.nih.gov/ BLAST+]

	=== System ===		== System ==
	64-bit Linux		64-bit Linux

Chelsea at 14:02, 8 July 2025

2025-07-08T14:02:07Z

← Older revision		Revision as of 10:02, 8 July 2025
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	cd $SLURM_SUBMIT_DIR		cd $SLURM_SUBMIT_DIR
	ml BLAST+/2.16.0-gompi-2024a		ml BLAST+/2.16.0-gompi-2024a
	ml ncbiblastdb/~~20230802~~		ml ncbiblastdb/20250502
	blastn [options]		blastn [options]
	</pre>		</pre>
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	cd $SLURM_SUBMIT_DIR		cd $SLURM_SUBMIT_DIR
	ml BLAST+/2.16.0-gompi-2024a		ml BLAST+/2.16.0-gompi-2024a
	ml ncbiblastdb/~~20230802~~		ml ncbiblastdb/20250502
	blastn -num_threads 8 -query example.fasta -out results.out -db nt		blastn -num_threads 8 -query example.fasta -out results.out -db nt
	</pre>		</pre>

Chelsea at 13:28, 8 July 2025

2025-07-08T13:28:03Z

← Older revision		Revision as of 09:28, 8 July 2025
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	=== Version ===		=== Version ===
			<!--
	2.2.31, 2.10.1, 2.11.0, 2.12.0, 2.13.0, 2.14.0		2.2.31, 2.10.1, 2.11.0, 2.12.0, 2.13.0, 2.14.0
			-->
			2.13.0, 2.14.1, 2.16.0

	=== Author / Distributor ===		=== Author / Distributor ===
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	NCBI databases are available at Sapelo2, please refer to [[Bioinformatics_Databases]] for more details. Datasets are located in the commonly shared "/db" filesystem. [[BLAST Databases-Sapelo2 \| NCBI BLAST datasets]] are pre-formatted to work with BLAST and BLAST+ and are located in "/db/ncbiblast/" and are organized by date.		NCBI databases are available at Sapelo2, please refer to [[Bioinformatics_Databases]] for more details. Datasets are located in the commonly shared "/db" filesystem. [[BLAST Databases-Sapelo2 \| NCBI BLAST datasets]] are pre-formatted to work with BLAST and BLAST+ and are located in "/db/ncbiblast/" and are organized by date.

	To use BLAST+ version 2.13.0, please first load the module, for example:		To use BLAST+ version 2.16.0, please first load the module, for example:
	<pre class="gscript">		<pre class="gscript">
	module load BLAST+/2.13.0-gompi-~~2022a~~		module load BLAST+/2.16.0-gompi-2024a
	</pre>		</pre>

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	#SBATCH --error=BLAST+.%j.err		#SBATCH --error=BLAST+.%j.err
	cd $SLURM_SUBMIT_DIR		cd $SLURM_SUBMIT_DIR
	ml BLAST+/2.13.0-gompi-~~2022a~~		ml BLAST+/2.16.0-gompi-2024a
	ml ncbiblastdb/20230802		ml ncbiblastdb/20230802
	blastn [options]		blastn [options]
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	#SBATCH --error=BLAST+.%j.err		#SBATCH --error=BLAST+.%j.err
	cd $SLURM_SUBMIT_DIR		cd $SLURM_SUBMIT_DIR
	ml BLAST+/2.13.0-gompi-~~2022a~~		ml BLAST+/2.16.0-gompi-2024a
	ml ncbiblastdb/20230802		ml ncbiblastdb/20230802
	blastn -num_threads 8 -query example.fasta -out results.out -db nt		blastn -num_threads 8 -query example.fasta -out results.out -db nt
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	<span id="blastn"></span>		<span id="blastn"></span>
	<pre class="gcommand">		<pre class="gcommand">
	module load BLAST+/2.13.0-gompi-~~2022a~~		module load BLAST+/2.16.0-gompi-2024a
	blastn -help		blastn -help
	USAGE		USAGE
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	DESCRIPTION		DESCRIPTION
	Nucleotide-Nucleotide BLAST 2.13.0+		Nucleotide-Nucleotide BLAST 2.16.0+

	OPTIONAL ARGUMENTS		OPTIONAL ARGUMENTS

Shtsai at 16:49, 14 May 2024

2024-05-14T16:49:35Z

← Older revision		Revision as of 12:49, 14 May 2024
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	#SBATCH --error=BLAST+.%j.err		#SBATCH --error=BLAST+.%j.err
	cd $SLURM_SUBMIT_DIR		cd $SLURM_SUBMIT_DIR
	ml BLAST+/2.13.0-gompi-~~2020b~~		ml BLAST+/2.13.0-gompi-2022a
	ml ncbiblastdb/20230802		ml ncbiblastdb/20230802
	blastn [options]		blastn [options]

Chelsea: /* Version */

2024-05-09T14:09:46Z

Version

← Older revision		Revision as of 10:09, 9 May 2024
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	=== Version ===		=== Version ===

	2.12.0, 2.13.0		2.2.31, 2.10.1, 2.11.0, 2.12.0, 2.13.0, 2.14.0

	=== Author / Distributor ===		=== Author / Distributor ===

Shtsai at 15:49, 5 September 2023

2023-09-05T15:49:40Z

← Older revision		Revision as of 11:49, 5 September 2023
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	[[#top\|Back to Top]]		[[#top\|Back to Top]]

			=== Installation ===

			Source code is obtained from [http://blast.ncbi.nlm.nih.gov/ BLAST+]

			=== System ===
			64-bit Linux

Shtsai at 15:48, 5 September 2023

2023-09-05T15:48:00Z

Show changes

Keeko: /* Documentation */

2022-04-08T18:00:05Z

Documentation

Show changes

Keeko at 17:53, 8 April 2022

2022-04-08T17:53:52Z

← Older revision		Revision as of 13:53, 8 April 2022
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	[[Category:~~Sapelo2old~~]][[Category:Software]][[Category:Bioinformatics]]		[[Category:Sapelo2]][[Category:Software]][[Category:Bioinformatics]]
	=== Category ===		=== Category ===

Keeko at 17:53, 8 April 2022

2022-04-08T17:53:38Z

← Older revision		Revision as of 13:53, 8 April 2022
Line 50:		Line 50:
	#SBATCH --error=BLAST+.%j.err		#SBATCH --error=BLAST+.%j.err
	cd $SLURM_SUBMIT_DIR		cd $SLURM_SUBMIT_DIR
	ml BLAST+/2.9.0-gompi-~~2019b~~		ml BLAST+/2.12.0-gompi-2020b
	ml ncbiblastdb/20220404		ml ncbiblastdb/20220404
	blastn [options]		blastn [options]
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	#SBATCH --error=BLAST+.%j.err		#SBATCH --error=BLAST+.%j.err
	cd $SLURM_SUBMIT_DIR		cd $SLURM_SUBMIT_DIR
	ml BLAST+/2.9.0-gompi-~~2019b~~		ml BLAST+/2.12.0-gompi-2020b
	ml ncbiblastdb/20220404		ml ncbiblastdb/20220404
	blastn -num_threads 8 -query example.fasta -out results.out -db nt		blastn -num_threads 8 -query example.fasta -out results.out -db nt