8000 KITE-seq kallisto index -t flag setting · Issue #4 · pachterlab/kite · GitHub
[go: up one dir, main page]
More Web Proxy on the site http://driver.im/
Skip to content

KITE-seq kallisto index -t flag setting #4

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
Open
shannjiang opened this issue Aug 7, 2020 · 0 comments
Open

KITE-seq kallisto index -t flag setting #4

shannjiang opened this issue Aug 7, 2020 · 0 comments

Comments

@shannjiang
Copy link

Dear Sir or Madam,

I am trying to use the kallisto/bustools pipeline (https://www.kallistobus.tools/kite_tutorial.html) on our KITE-seq data. I have a question on the following command:

kallisto index -i FeaturesMismatch.idx -k 15 ./FeaturesMismatch.fa
As stated in the documentation, -k only accept odd numbers. The feature barcode sequence length is 8 in our samples. Should I set it to the closest odd numbers, 7 or 9? Which odd number is better?

thanks,
Shan
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
1 participant
@shannjiang
0