V0.1.0

“Polishing the Diamond”

Release note: “2024-05-13” (YYYY-MM-DD)

According to the initial plan, all workflows have been developed. After two weeks of continuous testing, all expected functionalities have been realized. Additionally, the unplanned development of cellranger multi has been completed, and h5ad file output has been added. It is important to note that for non-10X workflows, special attention should be paid to the fact that their results may not be directly comparable to those of cellranger.

To address this issue, I have predefined some parameters for STARsolo. For details, please refer to the STARsolo manual at 'https://github.com/alexdobin/STAR/blob/master/docs/STARsolo.md'. Additionally, STARsolo theoretically supports any droplet-based or even non-droplet-based single-cell RNA sequencing data, and it also works for bulk RNA sequencing. The current STARsolo workflow can be run directly without umitools, as long as you have a whitelist file and a clear index sequence structure. The current STARsolo workflow does not include direct support for 10X sequencing data because I have adjusted some parameters specifically for seq-well and drop-seq, and these adjustments are not exposed to users. If users have similar requirements, they will need to make their own adjustments. Overall, after years of development, STAR's flexibility has exceeded my previous expectations. In the future, STAR may accompany us on a longer journey.

What we have,now?

• 10X Cellranger count WDL
• 10X Cellranger ATAC count WDL
• 10X Cellranger VDJ WDL
• 10X Spaceranger WDL
• 10X Cellranger multi WDL (for GEX + VDJ-T/VDJ-B or both of them)
• SeqWell & Drop-seq & BD WDL (STARsolo)
• SMART-seq WDL (STARsolo, too)
  Praise the god of STAR
• Dockers at here: https://hub.docker.com/repositories/ooaahhdocker