= Satellite meeting for Sequence analysis tools from the next generation sequencer =

== Topics ==
To share our knowledges about sequence analysis tools.
Please write what you know about the tools. 

Also see [http://www.oxfordjournals.org/our_journals/bioinformatics/nextgenerationsequencing.html Bioinformatics for Next Generation Sequencing virtual issue] -- yaskaz@ddbj (thanks to ichan) and [http://www.nature.com/nbt/journal/v26/n10/fig_tab/nbt1486_T3.html Table 3 of  Jay Shendure & Hanlee Ji., Next-generation DNA sequencing, Nature Biotech.] (thanks to hinaichigo)

== Mapping tools ==
Maq[[BR]]
ELAND[[BR]]
[http://bowtie-bio.sourceforge.net/index.shtml BOWTIE] Ultra-short reads, Burrows-Wheeler index. [[BR]]
Lasergene[[BR]]
GSrapper[[BR]]
[http://compbio.cs.toronto.edu/shrimp/ SHRiMP] supports letter-space (454/Solexa), color-space (Solid) and Helicos 2-pass space. Spaced-seeds followed by S-W. [[BR]]
[http://bx.psu.edu/miller_lab/dist/README.lastz-1.01.50/README.lastz-1.01.50.html Lastz] Blast(z) variant. Has parameter settings tuned for 454 and Solexa mapping for both reference based assembly and variant discovery. [[BR]]
EMBOSS

== Assemble tools ==
Velvet[[BR]]
EMBOSS


== Date ==



== Room ==


== Presentations ==


== Notes ==



== Results ==



== TODOs ==