This is a pipeline and associated R codes which take long-read isoform sequencing results as input and genarate an assembled transcriptome.

You can see the documents and the quick-start guides at https://musta.readthedocs.io.

A long-read transcriptome simlator, simlady, can be found at https://github.com/shinichinamba/simlady.

./MuSTA.R --help

If you feel this pipeline (or related codes) is useful, please cite:

S Namba et al. Multi-sample Full-length Transcriptome Analysis of 22 Breast Cancer Clinical Specimens with Long-Read Sequencing. BioRxiv (2020) https://doi.org/10.1101/2020.07.15.199851