Diamond - Revision history

PeterThorpe: /* key points made */

2019-01-22T13:39:10Z

‎key points made

PeterThorpe: /* key points made */

2019-01-22T11:29:29Z

‎key points made

PeterThorpe at 14:05, 23 October 2018

2018-10-23T14:05:55Z

Rf at 10:34, 21 April 2016

2016-04-21T10:34:09Z

Rf: Created page with "This is very fast alternative to the blastx program. This page contains some details about the program == key points made== * Describes blastx as the "gold standard" * high..."

2016-02-08T12:45:18Z

Created page with "This is very fast alternative to the blastx program. This page contains some details about the program == key points made== * Describes blastx as the "gold standard" * high..."

New page

This is very fast alternative to the blastx program. This page contains some details about the program

== key points made==

* Describes blastx as the "gold standard"
* highest value placed on sensitivity

← Older revision		Revision as of 13:39, 22 January 2019
Line 14:		Line 14:

	However, the latest diamond will only work with: nr_PT.dmnd		However, the latest diamond will only work with: nr_PT.dmnd
		+
		+
		+	Diamond website look here for detailed use:
		+	https://github.com/bbuchfink/diamond

	= Running in gridengine=		= Running in gridengine=

@@ Line 1: / Line 1: @@
-This is very fast alternative to the blastx program. This page contains some details about the program
+This is very fast alternative to the blastx and blastp program. This page contains some details about the program
 == key points made==
@@ Line 20: / Line 20: @@
   diamond blastx -p $NSLOTS -b 5 -d N95 -q 4440037.3.dna.fa -a N95 -t temp -e 0.000001 -k 1 -f tab
   diamond view -a N95.daa -o N95.m8

← Older revision		Revision as of 10:34, 21 April 2016
Line 5:		Line 5:
	* Describes blastx as the "gold standard"		* Describes blastx as the "gold standard"
	* highest value placed on sensitivity		* highest value placed on sensitivity
		+
		+	= Running in gridengine=
		+
		+	Here's a workable script
		+
		+	#!/bin/bash
		+	#$ -cwd
		+	#$ -j y
		+	#$ -S /bin/bash
		+	#$ -V
		+	#$ -q single.q
		+	#$ -pe multi 16
		+	module load diamond
		+	diamond blastx -p $NSLOTS -b 5 -d N95 -q 4440037.3.dna.fa -a N95 -t temp -e 0.000001 -k 1 -f tab
		+	diamond view -a N95.daa -o N95.m8

@@ Line 5: / Line 5: @@
 * Describes blastx as the "gold standard"
 * highest value placed on sensitivity
 = Running in gridengine=