Skip to content

Simulating transcriptome ONT reads

Pre-release
Pre-release
Compare
Choose a tag to compare
@SaberHQ SaberHQ released this 17 Jun 23:31
· 181 commits to master since this release
v2.3-beta
6f44514
This commit was created on GitHub.com and signed with GitHub’s verified signature. The key has expired.
GPG key ID: 4AEE18F83AFDEB23
Expired
Learn about vigilant mode.

NOTE: Please do not use this release as it has an input requirement bug.

This is a pre-release version which is now capable of simulating both genomic and transcriptomic (cDNA and directRNA) ONT reads with even increased performance. Users may run the pipeline in "genome" or "transcriptome" mode. The transcriptome mode also models features of the library preparation protocols used, including intron retention events in cDNA and direct RNA reads. Further, it profiles transcript expression patterns.

We provided a very comprehensive README file for more information on how to run the pipeline in both modes.

Users who may have tried Trans-NanoSim before, can now rely on this version to simulate transcriptome ONT reads.

This version has been tested on Python 2.7 and Python 3.6 with the latest compatible packages respectively.

Assets 2
Loading