Short read sequencing: Difference between revisions

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* [http://www.genome.org/cgi/content/abstract/gr.7337908v1 ALLPATHS Genome Research March 2008]
* [http://www.genome.org/cgi/content/abstract/gr.7337908v1 ALLPATHS Genome Research March 2008]
* [http://www.genomic.ch/edena.php edena]
* [http://www.genomic.ch/edena.php edena]
* [http://www.bcgsc.ca/platform/bioinfo/software/ssake SSAKE
* [http://www.bcgsc.ca/platform/bioinfo/software/ssake SSAKE]
* [http://www.ebi.ac.uk/~zerbino/velvet/ velvet]
* [http://www.ebi.ac.uk/~zerbino/velvet/ velvet]



Revision as of 23:06, 14 June 2008

Articles

06/13/2008

06/20/2008

Other

  • Ben's web sites
  1. Ben's 1
  2. Ben's 2

Data

Solexa

 Accession       #Runs   Instrument                      Center  Study                          [Individual]
 SRA000303       41      Solexa 1G Genome Analyzer       BI      1000Genomes Project Pilot 2     NA12878
 SRA000304       49      Solexa 1G Genome Analyzer       BI      1000Genomes Project Pilot 2     NA12891
 SRA000305       56      Solexa 1G Genome Analyzer       BI      1000Genomes Project Pilot 2     NA12892
 SRA000307       1       Solexa 1G Genome Analyzer       SC      1000Genomes Project Pilot 1     NA10851
 SRA000308       2       Solexa 1G Genome Analyzer       SC      1000Genomes Project Pilot 1     NA11993
 SRA000309       3       Solexa 1G Genome Analyzer       SC      1000Genomes Project Pilot 1     NA11995
 SRA000310       1       Solexa 1G Genome Analyzer       SC      1000Genomes Project Pilot 1     NA12006
 SRA000311       1       Solexa 1G Genome Analyzer       SC      1000Genomes Project Pilot 1     NA12044
 SRA000312       2       Solexa 1G Genome Analyzer       SC      1000Genomes Project Pilot 1     NA12156
 SRA000313       1       Solexa 1G Genome Analyzer       SC      1000Genomes Project Pilot 1     NA12414
 SRA000314       1       Solexa 1G Genome Analyzer       SC      1000Genomes Project Pilot 1     NA12776
 SRA000315       1       Solexa 1G Genome Analyzer       SC      1000Genomes Project Pilot 1     NA12828
 SRA000316       12      Solexa 1G Genome Analyzer       SC      1000Genomes Project Pilot 2     NA12878
 SRA000317       8       Solexa 1G Genome Analyzer       SC      1000Genomes Project Pilot 2     NA12891
 SRA000318       14      Solexa 1G Genome Analyzer       SC      1000Genomes Project Pilot 2     NA12892
 SRA000319       1       Solexa 1G Genome Analyzer       SC      1000Genomes Project Pilot 1     NA12004

Software

Under /fs/sz-user-supported/Linux-x86_64/bin/

Denovo assembly

Read mapping

  • blat
  • maq
  • soap