Skip to content
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.

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

Support SAM vector tags #2011

Open
wants to merge 1 commit into
base: master
Choose a base branch
from

Conversation

ohad-rodeh
Copy link

@ohad-rodeh ohad-rodeh commented Nov 29, 2023

A SAM file can be an input for STAR. For example, by using the these command line options:

 --readFilesIn  MYFILE.sam
--readFilesType SAM SE 
--readFilesSAMattrKeep All 
--readFilesCommand samtools view

The output SAM file retains the tags from the original SAM file (MYFILE.sam). This works well, except for vector tags, that are discarded. This code enhancement support those tags as well.

@ohad-rodeh ohad-rodeh changed the title Support vector tags in SAM. Support SAM vector tags Nov 29, 2023
@alexdobin alexdobin added this to the 2.7.12 milestone Jan 2, 2024
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

Successfully merging this pull request may close these issues.

None yet

2 participants