Perl
http://cpan.org
R
http://cran.org
http://had.co.nz/ggplot2/
http://zoonek2.free.fr/UNIX/48_R/all.html
http://www.statmethods.net/index.html
http://www.r-bloggers.com/
Python
http://wiki.python.org/moin/PerlPhrasebook
http://www.trii.org/courses/intro_python/
Statistics
http://faculty.vassar.edu/lowry/VassarStats.html
http://udel.edu/~mcdonald/statbigchart.html
CrossValidated - stats stackexchange
http://www.statisticsblog.com/
Sequencing
http://picard.sourceforge.net/explain-flags.html
Parallel Computing
http://wiki.gridengine.info/wiki/index.php/Simple-Job-Array-Howto
http://www.clusterresources.com/torquedocs21/2.1jobsubmission.shtml
Machine Learning
http://www.autonlab.org/tutorials/
http://vancouverdata.blogspot.com/
Math
http://public.lanl.gov/mewall/kluwer2002.html
NGS
Biostars - Bioinformatics stackexchange
Seqanswers - NGS analysis community