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eudoraleer / scasa

SCASA: Single cell transcript quantification tool
GNU General Public License v3.0
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Smart-seq2 full length RNA-seq data #9

Open seongguheo opened 1 year ago

seongguheo commented 1 year ago

Dear Author,

Thank you for the wonderful tool. I wonder if it can analysis Smart-seq2 full length single cell RNA-seq data as well. If it can, what should be come for --tech ?

Best Heo

nghiavtr commented 1 year ago

Dear @seongguheo,

Thank you for your interesting in our isoform quantification tool.

Scasa is designed for prime-biased single-cell RNA-seq data. For the full-length Smart-seq2, you can use another tool from our group, XAEM (https://www.meb.ki.se/sites/biostatwiki/xaem/) that it has demonstrated well performance for both bulk RNA-seq and full-length Smart-seq2 data in its publication (https://academic.oup.com/bioinformatics/article/36/3/805/5545974)

Drop me a line if you have any issues with either Scasa or XAEM.

Best, Nghia