TABLE 2.
Tools | Function | Language | URL |
---|---|---|---|
CellRanger | Analyse pipelines | Python | https://support.10xgenomics.com/single‐cell‐gene‐expression/software/pipelines/latest/what‐is‐cell‐ranger |
DropEst | Analyse pipelines | C++ | https://github.com/hms‐dbmi/dropEst |
Kallisto–BUStools | Reads mapping | Python,R | https://www.kallistobus.tools/getting_started |
Alevin | Reads mapping | Rust | https://salmon.readthedocs.io/en/latest/alevin.html |
Cufflinks | Expression quantification | Python | https://github.com/cole‐trapnell‐lab/cufflinks |
RSEM | Expression quantification | C++ | https://github.com/deweylab/RSEM |
Stringtie | Expression quantification | C++ | https://github.com/gpertea/stringtie |
SAVER | Expression quantification | R | https://github.com/mohuangx/SAVER |