scVelo on the cover of Nature Biotechnology 2020-12-01¶
Scanpy selected among 20 papers for 20 years of Genome Biology 2020-08-01¶
Genome Biology: Celebrating 20 Years of Genome Biology selected the initial Scanpy paper for the year 2018 among 20 papers for 20 years [tweet].
COVID-19 datasets distributed as
In a joint initiative, the Wellcome Sanger Institute, the Human Cell Atlas, and the CZI distribute datasets related to COVID-19 via anndata’s
h5ad files: covid19cellatlas.org. It wasn’t anticipated that the initial idea of sharing and backing an on-disk representation of
AnnData would become so widely adopted. Curious? Read up more on the format.
Scanpy featured in Nature Biotechnoloogy 2020-02-01¶
Single-cell RNA-seq analysis software providers scramble to offer solutions mentions Scanpy along with Seurat as the two major open source software packages for single-cell analysis [pdf].
Scanpy has been selected an “Essential open source software for science” by CZI 2019-11-14¶
Scanpy has been selected an essential open source software for science by CZI among 32 projects, along with giants such as Scipy, Numpy, Pandas, Matplotlib, scikit-learn, scikit-image/plotly, pip, jupyterhub/binder, Bioconda, Seurat, Bioconductor, and others.
Nature Biotechnology: A comparison of single-cell trajectory inference methods 2019-04-01¶
Nature Biotechnology reviews more than 70 TI tools and ranks PAGA as the best graph-based trajectory inference method, and overall, among the top 3.