collapse with some data was very slow

[shizhuoxing]

Hi, Liz, I have found that when run the collapse with some data was very slow, most of the time it won't running finish (kill the process by myself after running for a few months!), and i split the data by chromosome have found that most of this case was occurs in mitochondria (tested species have:human, mouse, monkey), this issue was exist in cDNA_cupcake version 28.0.0 and older version. I have make some data for a example, could you please help to find out the cause of this problem and see if there is a solution? thanks!

[Magdoll]

Hi @shizhuoxing - you can use --cpus to speedup, but yes, collapse can run slow on very large datasets. We are planning to release much faster version via the official isoseq3 module soon. Stay tuned! -Liz