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

Integrate NCBI tax tool in screening #7

Open
hyphaltip opened this issue Dec 13, 2019 · 2 comments
Open

Integrate NCBI tax tool in screening #7

hyphaltip opened this issue Dec 13, 2019 · 2 comments

Comments

@hyphaltip
Copy link
Member

https://github.com/ncbi/ngs-tools/tree/tax/tools/tax tool provides way to screen for contamination in reads or contigs before processing

@hyphaltip
Copy link
Member Author

large scale database install needed to replicate NCBI process, unclear at this point if it is that superior to sourpurge and the vecscreen logic already - there are small instances that appear when submitting genomes but it isn't clear this is useful overhead for this tool as full install of NCBI resources are very large and require dedicated machine with high memory.

@hyphaltip
Copy link
Member Author

Add FCS-adaptor to vecscreen step -- https://github.com/ncbi/fcs/wiki/FCS-adaptor

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

No branches or pull requests

1 participant