Jana Spilkova, Dagmar Dzúrova, Michal Pitonak
Perception of neighborhood environment and health risk behaviors in Prague's teenagers: a pilot study in a post-communist city
International journal of health geographics
singlecell transcriptomics profiling increasingly used evaluate crossgroup differences cell population celltype gene expression often leads large datasets complex experimental designs need advanced comparative analysis concurrently bioinformatics software analytic approaches also become diverse constantly undergo improvement thus increased need automated standardized data processing analysis pipelines efficient flexible address develop ingle c ell ifferential nalysis p rocessing p ipeline scdapp rbased workflow comparative analysis single cell nucleus transcriptomic data two groups levels single cells pseudobulking samples pipeline automates many steps preprocessing using datalearnt parameters uses previously benchmarked software generates comprehensive intermediate data final results valuable beginners experts scrnaseq analysis moreover analytic reports augmented extensive data visualization increase transparency computational analysis parameter choices facilitate users go seamlessly raw data biological interpretation scdapp freely available noncommercial usage r package mit license source code documentation sample data available github httpsgithubcombioinfodzscdapp