CEES bioinformatics knowledge

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A non-extensive list of CEES participants and their knowledge on bioinformatics and various software tools

Name Project Knows about Experience with software
Thomas Haverkamp Thermotoga genomes Genome assembly, Mapping, Sequence Quality control, shot-gun seq, amplicon sequencing, Pacbio data, MiSeq data, Sequence classification, slurm jobs Various assemblers (e.g: Velvet, SPAdes, SGA), Bwa, samtools, Mothur, MEGAN, comparative genomics
Anna Mazzarella Stickleback Rad tag sequencing, mapping, simple bash scripting Stacks, bowtie, bwa, samtools, gmap, gsnap
Tore Oldeide Elgvin Sparrows WGS Illumina data, assembly, assembly validation, mapping, population genomics, basic unix MEGA, Arlequin, DNAsp, Geneious, Reapr, CEGMA, Allpaths-LG, samtools, bwa
Monica H. Solbakken Atlantic cod De novo transcriptome assembly, mapping, differential expression, genome mining. HiSeq and 454 data mainly Trinity, bwa, bowtie, blastx annotation pipeline, other misc software on the cod nodes, edgeR, DEseq