Home
The TranD manuscript is available here.
Citation:
Adalena Nanni, James Titus-McQuillan, Kinfeosioluwa S Bankole, Francisco Pardo-Palacios, Sarah Signor,
Srna Vlaho, Oleksandr Moskalenko, Alison M Morse, Rebekah L Rogers, Ana Conesa, Lauren M McIntyre.
Nucleotide-level distance metrics to quantify alternative splicing implemented in TranD.
Nucleic Acids Research, Volume 52, Issue 5, 21 March 2024, Page e28,
https://doi.org/10.1093/nar/gkae056
- For instructions on how to install and use TranD, with examples.
- For a description of the various output files created by TranD and certain key utilities.
- Contains TranD precomputed output files for 1GTF and 2GTF usage of TranD, as well as example Transcript Model Maps.
- For a detailed guide following the data analysis pipeline used for creating a Transcript Model Map.
- For a detailed explanation of each TranD utility: tools used in conjunction with TranD and tools that can further analyze TranD output.
- For an in-progress description of the best way to process long read data into an annotation that can be analyzed by TranD.
- Comparing Drosophila melanogaster and Drosophila simulans to show an example of using TranD to perform cross-species genome and transcriptome comparison
- An example of comparing two long read methods using TranD and Drosophila data.
- An example of comparing two annotation creation methods using TranD and human data.
We take requests to produce additional precomputed data using our computational resources. Use TranD GitHub Issues to submit requests for new datasets.
A preprint of the TranD manuscript is available here