New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

add cs_long flag to mappy.Aligner.map, and a "-C" option to minimap2.py #1194

Open

nickzoic wants to merge 1 commit into lh3:master from nickzoic:nickzoic/python-long-cs

nickzoic commented

Adds a cs_long flag to mappy.Aligner.map, to let Python code get the "long CS" format string.

# generate a short cs string
aligner.map(seq, cs=True)

# generate a long cs string
aligner.map(seq, cs_long=True)

Also adds a -C command line option to minimap2.py by way of example.


          add cs_long flag to mappy.Aligner.map, and a "-C" option to minimap2.py

8a6f18e

nickzoic mentioned this pull request

Add "tseq" output & make available to Python #1201

Open

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment