scTPA cann't process files more than 150 MB, we recommend you to use the R package for your analysis. Sorry for the inconvenience.

//qu diao tpm //
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// qu diao cell //
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scRNA-seq profiles preprocessing

Pathway activity score calculation

Clustering methods

Marker pathway identification
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  • Oct. 13, 2020

    Debugging file type error

  • Jul. 29, 2020

    Update new PAS tools: Pagoda2, Vision and AUCell

  • Jul. 27, 2020

    Update new normalization method SCTransform; pathways from MsigDB (V7.1) and GSKB (V1.20.0)

  • Apr. 03, 2020

    Update new normalization method wrapped in scran

  • Nov. 03, 2019


Zhang Y*, Zhang Y*, Hu J*, Zhang J, Guo F, Zhou M, Zhang G#, Yu F#, Su J#. scTPA: A web tool for single-cell transcriptome analysis of pathway activation signatures. Bioinformatics. 2020.
Zhang Y*, Ma Y*, Huang Y, Zhang Y, Jiang Q, Zhou M, Su J#. Benchmarking algorithms for pathway activity transformation of single-cell RNA-seq data. Computational and Structural Biotechnology Journal (Accepted)