In this directory, scripts for analyses with reference sequences of C. elegans ce11 and E. coli REL606 are located.
- create a directory for a sample and a parameter set
- move to the directory and create a setting file for the location of subreads data for SMRT Link (.subreads.xml) with command
dataset create. - call alignment and IPD (inter-pulse duration) summarization pipeline with
run_pbsmrtpipe.sh - call extra scripts with
make -f ../samples.makefile