Integrated Ciona single cell transcriptome

This analysis integrates publicly available datasets from multiple studies, including Cao et al. 2019 Sharma et al. 2019 Winkley et al. 2021 The pipeline to generate this data can be found at CionaLab/srst. Filename Notes integrated_ky21_raw.h5ad Raw concatnated dataset integrated_ky21.h5ad Integrated by a Linearly-decoded Variational Auto-encoder (LDVAE). integrated_ky21_npisc_c64.h5ad 64-cell stage integrated_ky21_npisc_iniG.h5ad Initial gastrula integrated_ky21_npisc_midG.h5ad Mid gastrula integrated_ky21_npisc_earN.h5ad Early neurula integrated_ky21_npisc_latN.h5ad Late neurula integrated_ky21_npisc_iniT.h5ad Initial tailbud integrated_ky21_npisc_earT.h5ad Early tailbud integrated_ky21_npisc_midT.h5ad Mid tailbud integrated_ky21_npisc_latTI.h5ad Late tailbud I integrated_ky21_npisc_latTII.h5ad Late tailbud II integrated_ky21_npisc_larva.h5ad Larva integrated_ky21_npisc_np_midG.h5ad Neural plate, mid gastrula integrated_ky21_npisc_np_earN.h5ad Nerula plate, early neurula integrated_ky21_npisc_np_latN.h5ad Nerual plate, late neurula