Please check out our new Google newsgroup for TAPIS: https://groups.google.com/forum/?hl=en#!forum/tapis
*July 13, 2016*
Version 1.2.1 released!
GMAP version of 2015-07-23 is not compatible with TAPIS as a bug in their software does not provide strand information for all alignments. We recommend using a more recent version. Thank you to Lianfeng Gu from Haixia Institute of Science and Technology (HIST) for bringing this to our attention!
TAPIS (Transriptome Analysis Pipeline from Isoform Sequencing) is a program for correcting and aligning long reads with/without second generation reads, transcript clustering, novel and full-length splice isoform detection, and identification and analysis of polyadenylation (poly(A)) and alternative poly(A) (APA).
python setup.py build
python setup.py install
To install to a local set of python libraries use --home=/PATH/TO/LOCAL/LIBRARY
Align reads to reference genome using alignPacBio.py
Run analysis on aligned reads using run_tapis.py