2007-01-14:HapMap Public Release #21a

Work

New features in this release include Segmental Duplications and Copy Number Variation (CNV). Segmental Duplications correspond to High-Depth Celera Reads (She et al. 2004; Bailey et al. 2001 & 2002). Structural Variation datasets include:

  • CNV regions determined in HapMap samples (Redon et al. 2006)
  • CNV datasets (Iafrate et al. 2004, Sebat et al. 2004, Sharp et al. 2005, Tuzun et al. 2005)
  • Deletions (Hinds et al. 2006, Conrad et al. 2006; McCarroll et al. 2006)

機能ゲノミクス研究会／ゲノム情報利用ワークショップ2007

Work

http://www.kazusa.or.jp/workshop/genome2007/
アノテーションパイプラインとかWebサービス／知識統合活用とか、とてもおもしろそう。
バリバリやってる人たちが話してくれるのはとっても得難い機会。<追記>
宿泊ホテルの1つ、ロイヤルガーデン木更津はここから予約できた。
http://travel.rakuten.co.jp/HOTEL/6063/6063.html

Rgraphviz installation mac os x intel

Work

Gavai AnandさんがBioCのMLにポストしたものをメモ。

Hi there,
It has been some time trying to install and configure Rgraphviz to work with graphviz. here is a receipe which works quiet well

install R from Darwin ports "http://darwinports.opendarwin.org/getdp/"

by
>sudo port install r

this will take some time and installation of R will be done in /opt directory created by darwinports during its installation.
as its not set in the environment variable by darwinports
so set it in your .bash_profile or .tcsh files e.g export PATH=/opt/local/bin:$PATH

also install other packages which are required for Rgraphviz like "graphviz" and "pkgconfig" by

>sudo port install graphviz

wait for a while

>sudo port install pkgconig

both these commands will also install dependencies which are required. After this

Start up an R session being root and get the latest version of bioconductor packages by sourcing it from bioconductor website

>source("http://www.bioconductor.org/biocLite.R")
>biocLite()

wait for a while and then install

>biocLite("Rgraphviz",depend=TRUE,type="source")


works fine,