TY  - JOUR
AU  - Foerster, Leo Carl
AU  - Frigoli, Enrico
AU  - Sun, Xiaoyu
AU  - Hooli, Jooa Hermanni
AU  - Goncalves, Angela
AU  - Martin-Villalba, Ana
TI  - Umite: fast quantification of smart-seq3 libraries with improved UMI retrieval.
JO  - Bioinformatics
VL  - nn
SN  - 1367-4803
CY  - Oxford
PB  - Oxford Univ. Press
M1  - DKFZ-2026-00354
SP  - nn
PY  - 2026
N1  - #EA:A290#LA:A290# / epub
AB  - Commercial solutions like 10X cellranger provide robust UMI quantification for their proprietary single-cell protocols, but open methods such as Smart-seq3 lack comparable support.Here, we introduce umite, a Smart-seq3 UMI counting pipeline with a focus on speed and a light memory footprint. Unlike existing tools, umite offers efficient mismatch-tolerant UMI detection, boosting UMI retrieval by 5-15
LB  - PUB:(DE-HGF)16
C6  - pmid:41692984
DO  - DOI:10.1093/bioinformatics/btag075
UR  - https://inrepo02.dkfz.de/record/309869
ER  -