dropEst

Single-cell RNA-seq analysis pipeline

A software pipeline for analyzing single-cell RNA-seq data from droplet-based experiments

Pipeline for initial analysis of droplet-based single-cell RNA-seq data

GitHub

88 stars
15 watching
42 forks
Language: C++
last commit: over 4 years ago
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pipelinepreprocessingscrna-seqsingle-cell-rna-seq

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