Difference between revisions of "CEES bioinformatics knowledge"

Revision as of 13:12, 24 February 2014

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

Name	Project	Knows about	Experience with software	programming language
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	R-statistics, some python
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
Lex Nederbragt	Atlantic cod, Norwegian Sequencing Centre	All sequencing platforms, genome assembly, assembly validation and visualisation, reproducible science, version control, good computational practice, using high-performance computing (HPC) infrastructure and the Abel cluster	Various assemblers, BWA, samtools, unix, sed, awk, python, perl, PacBio's smrtanalysis

If you want your knowledge to be added to the list,

please send an e-mail to: genomic-analyses at ibv.uio.no

@@ Line 13: / Line 13: @@
 | 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
-| R-statistics, a tiny bit of python
+| R-statistics, some python
 |-
 | Anna Mazzarella