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Created with Raphaël 2.2.016Jul1030Jun28Apr6Dec29Nov20Aug19161484Jul32126Feb9614Jan20Dec54330Nov292710230Oct26191710819Sep131074328Aug272321161525Jun7529May28330Apr24105429Mar2815Dec30Nov17327Oct20uploaded scripts for hybridisation check based on Volkersmastermastertwo same qPCR numbers prevented spread from working, now with sample number selection insteadupdate figures and data for arrayexpresslm hs datalinear model heat shock data addedlook at IPR genes specifically in HS and OrV dataminor changehaplotypes pals-22 and pals-25plate assay data on gene expression and viral loadashe file added with log10 normaisation per batch per JU1580 sample (way they normalised in the paper)compared pals-gene haplotypes to data ashe 2013updated blast script (factor/numeric switch)updated volcanofinding spot number DEGschanges cahngeschangesaddition food intake dataadded gene expression by qPCR data (needs some checks on normalisation method still)filtered strain that are mentioned in paper Richaud et al 2018 Genetics for selection or notselection or not without r rate correctionselection.or.not without recombination rateFDR enrichment from 0.1 to 0.05renewed OrV database and uploaded itMerge branch 'master' of https://git.wur.nl/mark_sterken/Orsay_transcriptomicschanges that should be commited before mergingadded array express outputnothing specialcalculated the correlation coefficient over time for all treatments and made a plot of thisadded hawaiian plot to the mapupdated Tajima figureworked on pals variation vs total variation in the CeNDR strainsTajima's D! added a saveMerge branch 'master' of https://git.wur.nl/mark_sterken/Orsay_transcriptomicsTajima's D!worked on figuresblabsome small changesMerge branch 'master' of https://git.wur.nl/mark_sterken/Orsay_transcriptomicstajima dplaying around with selection in pals