Re: [Geuvadis_rna_analysis] Analysis group TC June 21st - Minutes

Hello, Here are the minutes of today's analysis group call. The next call will be in one week, June 28th at 2pm CET. - Everything is pretty much set for the Barcelona analysis group meeting. Tuuli and Gabrielle will put together the final program & practical info. Most people are staying in H10 Marina - if you haven't arranged your accommodation yet and want to stay there, contact them directly: tel (34) 93 309 79 17, fax (34) 93 309 97 62, group booking code 11596 - Genotype data is now available on the ftp site also for the imputed samples. - Splice junction quantifications should be done within days, some N-TARs in a couple of weeks, other labs are also analyzing data - Thasso will write documentation about the GEM mapping in the wiki - some of the parameters about multimapping reads etc. are important to know for analysts - Leiden needs insert size distributions; Tuuli uploaded them in /upload/geuvadis/wp4_rnaseq/main_project/analysis_data/qc/insert_size - Natalja will create wig files from a couple of samples so that we can test visualizing them in the Ensembl browser - Thasso will start running simulated read mappings (single end, no split mapping needed), after which Tuuli will finish ASE - Tuuli will do sample swap checks for the imputed samples too, and look into other QC aspects - Jonas presented slides about mRNA QC analysis. Some outliers and some lab effects but no major concerns, replicates show good signals. - We'll have Liliana's and Mar's presentations next week best regards, Tuuli Tuuli Lappalainen, PhD Department of Genetic Medicine and Development University of Geneva Medical School CMU / Rue Michel-Servet 1 1211 Geneva 4 Switzerland Tel. +41-(0)22-3795550 tuuli.lappalainen(a)unige.ch On 6/20/12 4:26 PM, Tuuli Lappalainen wrote: