2.7.0a release introduces STARsolo, a turnkey solution for analyzing droplet single-cell RNA sequencing (e.g. 10X) built directly into the STAR code. It produces gene counts nearly identical to 10X CellRanger. At the same time, STARsolo is ~10 times faster than the CellRanger.

Thanks for all of the great responses to this. A few more ideas I'd like to trial-balloon (feel free to aim and shoot). 1/n

STAR 2.7.1a: github.com/alexdobin/STAR… New single-cell RNA-seq features implemented: counting intronic (precursor mRNA) reads, no-whitelist cell barcode demultiplexing, cell barcodes longer than 16b.

STAR 2.7.2a: github.com/alexdobin/STAR… Major improvements in chimeric detection and reporting, contributed by Brian Haas @brianjhaas.

STAR 2.7.3a github.com/alexdobin/STAR… Major new STARsolo features: cell filtering and QC summary; support for complex barcodes (e.g. inDrop); Velocyto counts; CB/UMI tags in BAM output; better compatibility with CellRanger 3.x.x

Haas, Regev and co benchmark methods for identifying fusion transcripts from RNA-seq data. De novo assembly based methods are less accurate than read mapping approaches. Part of our #benchmarking special issue genomebiology.biomedcentral.com/articles/10.11…

This year's Genome Informatics conference at Cold Spring Harbor Laboratory was great! I'd like to thank the organizers of #gi2019 for the chance to talk about STARsolo-Quant: a scRNA-seq isoform abundance estimator I've been working on with Alex Dobin. see my slides at: f1000research.com/slides/8-1897

STARsolo poster from #gi2019 is available on f1000 Genome Informatics Conference Collection: doi.org/10.7490/f1000r…

A few word on our recent manuscript, “The transcriptional legacy of developmental stochasticity” biorxiv.org/content/10.110… (0/18)

The transcriptional legacy of developmental stochasticity biorxiv.org/content/10.110…

Happy to share our new online-first publication: Evaluation of STAR and Kallisto on Single Cell RNA-Seq Data Alignment. 🙂 We found the efficiency of Kallisto comes with the trade off on performance, slightly. #singleCell #bioinformatics 1/n g3journal.org/content/early/…

New STAR release 2.7.5a: github.com/alexdobin/STAR… Major new feature: STARsolo mappin and quantification for plate- based (Smart-seq) scRNA-seq.

Our preprint "Virtue as the mean: Pan-human consensus genome significantly improves the accuracy of RNA-seq analyses": biorxiv.org/content/10.110… Led by Ben Kaminow , collaborating with Sara Ballouz and Jesse Gillis . STARconsensus is released as 2.7.7a: github.com/alexdobin/STAR…