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• GBrowse
  ...ncludes a starting VMware image, and uses the example data that comes with SAMtools.
  11 KB (1,422 words) - 16:47, 10 April 2023
• GBrowse Ubuntu HOWTO
  sudo apt-get install gbrowse gbrowse-calign gbrowse-data libbio-samtools-perl apache2 libapache2-mod-fcgid libxml-sax-writer-perl libxml-xpathengine-perl libyaml-syck-perl samtools
  8 KB (799 words) - 20:37, 8 August 2018
• User:Clements
  * ''Visualizing Next Generation Sequence Data with GBrowse and SAMtools'', poster at [http://www.ausbiotech2009.com.au/bia/bia-home Bioinformatics
  9 KB (1,255 words) - 21:39, 31 December 2018
• Glossary
  ...e Alignment/Map (SAM)]]'' format. BAM and SAM are both part of [[#SAMtools|SAMtools]]. BAM is compressed, binary, indexed format for [[Next Generation Sequenc ...rmat for [[Next Generation Sequencing]] data. It is a part of [[#SAMtools|SAMtools]]. [[GBrowse]] 2 has an adaptor that can read SAM data.
  14 KB (2,081 words) - 02:50, 14 March 2014
• GBrowse Adaptors
  | [http://samtools.sourceforge.net/ SAMtools]
  3 KB (443 words) - 16:22, 7 August 2012
• August 2009 GMOD Meeting
  ...on next generation sequencing, including [http://samtools.sourceforge.net SAMtools], BWA, and [http://maq.sourceforge.net MAQ].</div> ...: Sequence alignment/map format (SAM) and [http://samtools.sourceforge.net SAMtools]
  59 KB (8,741 words) - 19:37, 4 September 2013
• GBrowse Tutorial
  ...des a starting [[VMware]] image, and uses the example data that comes with SAMtools.
  2 KB (236 words) - 17:10, 18 December 2013
• News/Aug 2009 GMOD Meeting Report
  ...on [[August 2009 GMOD Meeting#Visualising NGS Data in GBrowse 2|using SAM/SAMtools in GBrowse]].
  2 KB (301 words) - 19:37, 4 September 2013
• News/GMOD Tutorials! GMOD Training!
  ...tion Sequence]] Data with [[GBrowse]] and [http://samtools.sourceforge.net SAMtools]''' (poster)
  4 KB (542 words) - 23:11, 9 October 2012
• News/GBrowse NGS Tutorial & Poster
  ...ep instructions for visualizing the example human data that comes with the SAMtools package.
  1 KB (156 words) - 23:10, 9 October 2012
• News/NGS Analyses in Galaxy
  ...ncludes a variety of utilities for SAM/BAM manipulation. Some are based on SAMtools library, some are written by [[Galaxy]] team.
  2 KB (239 words) - 23:09, 9 October 2012

• File:GMODGBrowseSMBE2009.pdf ...neration Sequencing|next generation sequence data]] using the Bio-SamTools SAMtools [[GBrowse Adaptors|GBrowse adaptor]]. This was [[Training and Outreach|pre (18.41 MB) - 03:17, 15 July 2009

• File:AGA NGS 2009.pdf Discusses using [[GBrowse]] and SAMtools to visualize [[next generation sequencing|Next Generation Sequence Data]]. (17.08 MB) - 06:45, 30 November 2009

• Next Generation Sequencing
  ...rowse]] 2 to visualize NGS data using the [http://samtools.sourceforge.net SAMtools] GBrowse adaptor, Bio::DB::Sam. This includes a [[VMware]] image to work w ...) and SAMtools|Quest for Standard: Sequence alignment/map format (SAM) and SAMtools]]
  3 KB (450 words) - 00:52, 18 November 2010

• File:Aug2009Sam.pdf = Quest for Standard: Sequence alignment/map format (SAM) and SAMtools = ...9 GMOD Meeting#Quest for Standard: Sequence alignment/map format (SAM) and SAMtools|meeting writeup]] for a summary of this talk. (582 KB) - 05:11, 30 August 2009

• JBrowse Tutorial 2010
  * samtools, and its dependency libncurses5-dev $ wget http://sourceforge.net/projects/samtools/files/samtools/0.1.7/samtools-0.1.7a.tar.bz2/download
  9 KB (1,327 words) - 22:46, 3 October 2012
• GBrowse NGS Tutorial
  ...eration Sequencing]] (NGS) data using the [http://samtools.sourceforge.net SAMtools] GBrowse adaptor, Bio::DB::Sam. ...urceforge.net SAMtools]. We'll use the example human data that comes with SAMtools to do that. First we'll load the reference sequence and some gene models.
  38 KB (5,742 words) - 18:11, 9 October 2012
• Talk:GBrowse NGS Tutorial
  =SamTools compilation= ...mtools to have -fPIC compile-time options so that I could then compile Bio-SamTools which was complaining
  367 B (55 words) - 19:04, 14 November 2009
• ABRF2010 Workshop
  *[http://samtools.sourceforge.net/ BAM or SAM] (for sequence alignment data) ...ompact, fast to read way, as part of the [http://samtools.sourceforge.net/ SAMtools] project.
  17 KB (2,763 words) - 18:52, 8 October 2012
• Template:GMODEventsList
  | '''Visualizing Next Generation Sequence Data with GBrowse and SAMtools''' (poster)
  23 KB (3,134 words) - 18:32, 29 March 2013