Next Generation Sequencing - Data Analysis
We provide support/services for sequence assembly, mapping (e.g., Illumina on 454 transcriptomes), contig annotation, cluster-analysis, phylogenenetic placement, metagenome / -transcriptome functional comparative analysis, ...
arb is a software environment primarily for ribosomal DNA sequence data, used by several working groups at the AWI. The bioinformatics group provides a platform and user support concerning arb.
Some arb links:
Course material (7.3.2007):
R is a flexible and powerful open source statistical analysis environment.
POLMAR R-Course "Programming" (3/2017 Bremerhaven)
step4.R for multiple-file analyses, see prepmf.R (Day2-ZIP)
R for Paleo modellers
ZIP ; NetCDFs found on csys-FS or biseqa:/tmp/R-Paleo/
Day1-ZIP incl. PPT-PDF
Day2-ZIP incl data
Material for lecture on "Linear algebra in the exploration of climate processes"
Motivation analyses (Rahmstorf 2003 d18O-data and El Nino EOF1): sst_d18O.R
Material on Clustering, Mapping, CCA:
R functions for testing genetic marker (AFLP or microsatellite) saturation for the following paper:
Alpermann, John, Tillmann, Beszteri & Cembella: Population characteristics of Alexandrium tamarense (Dinophyta)...