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

Look into potential uses of seqspec #113

Open
balajtimate opened this issue Mar 30, 2023 · 1 comment
Open

Look into potential uses of seqspec #113

balajtimate opened this issue Mar 30, 2023 · 1 comment
Labels
future Will not be worked on for now

Comments

@balajtimate
Copy link
Contributor

Seqspec (https://github.com/IGVF/seqspec) is a machine-readable specification for libraries, a file format based on yaml, that enables sequence read annotation. The scope is broader than ours, including ATAC-Seq, WGS, SHARE-Seq, also not just Illumina.

We could explore the uses of seqspec in relation to HTSinfer, maybe compare the results in some known cases (e.g. detailed information from publication/sequencing kit), in terms of region_type, min_len and max_len.

The article can be found here: https://www.biorxiv.org/content/10.1101/2023.03.17.533215v1.full

@balajtimate
Copy link
Contributor Author

I'll look into the details further, just wanted to have it here so it doesn't get left out.

@uniqueg uniqueg added the future Will not be worked on for now label Dec 20, 2023
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
future Will not be worked on for now
Projects
None yet
Development

No branches or pull requests

2 participants