Juan L Rodriguez-Flores, Ph.D.

Add genome to alignment

11

I have 5 mammalian genomes that I am trying to align using progressiveCactus. When I try to run all 5, it takes months on my limited available computational resources. However,...

Several months for alignment

4

I am aligning 5 assembled mammalian genomes, and the runtime is over 2 months at this point. It does not appear to have crashed, as the log file has lines...

Liftover and ancestral

1

Dear progressiveCactus, I have 4 different assemblies of a human chromosome, including the reference and 3 alternatives. I would like to do a liftover of annotations from the reference to...

I am trying to run progressiveCactus on 3 sequences, arranged as follows: $ cat seq2 (r1,(r2,(r2i))); *r1 r1..fa r2 r2.fa r2i r2i.fa If I run this as follows there are...