Single-cell RNA-seq, PBMC 3k v1, Wave 2 STARsolo run (2026-05-06)
phalaena:run:PA-R-4-1-wave2-2026-05-06
Wave 2 run of paper 4.1 (PBMC 3k, 10x Chromium 3' v1, Zheng 2017). End-to-end through the cellseq pipeline (RA_SPLIT to split the v1 RA-interleaved chunks, then STARsolo against a Track 2 prebuilt STAR index on GRCh38, then Scrublet plus Scanpy), completing in 1 h 43 min wall clock. SUCCESS. Run id 6685ddf6949328e4bc6124b341b61e37 (Track 2 STAR GRCh38). Numeric outputs match the pinned headlines in MANIFEST.json (slot 4.1): 3,563 estimated cells, 70.18 percent reads mapped to gene unique, 83.94 percent sequencing saturation, 11 Leiden clusters.
- kind
- run
- pipeline
- Single-cell RNA-seq pipeline, release p1.1
- status
- reviewed
- googlebatch:6685ddf6949328e4bc6124b341b61e37
- phalaena:run:6685ddf6
View Single-cell RNA-seq, PBMC 3k v1, Wave 2 STARsolo run (2026-05-06) on the Phalaena Wiki