For long error prone reads, use BLAST or BLASR or LAST for alignment.
-
BALST:
/gsc/btl/linuxbrew/bin/blastn -
LAST:
/gsc/btl/linuxbrew/bin/lastal
DATA:
e.coli K-12 MG1655 strain R7 and R7.3 nanopore reads.
/projects/btl/datasets/ecoli/oxfordNanopore_SEP2014 R7 or R7.3
yeast R7 chemistry
/projects/btl/datasets/scerevisiae/schatz2015_ONT/W303_ONT_Raw_reads.fa