Skip to content

Issues: dib-lab/genome-grist

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

105 Open 67 Closed
105 Open 67 Closed
Author
Filter by author
Loading
Label
Filter by label
Loading
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Loading
Milestones
Filter by milestone
Loading
Assignee
Filter by who’s assigned
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Issues list

use directsketch to download genomes
#315 opened Nov 13, 2024 by ctb
modernize genome-grist :)
#312 opened Sep 18, 2024 by ctb
4 tasks
a passing thought on contaminated references
#311 opened Jul 29, 2024 by clb21565
Bumping bcftools to 1.18 in bcftools.yml?
#301 opened Oct 18, 2023 by scunnac
revisit read naming - /1 and /2
#297 opened Aug 27, 2023 by ctb
switch to using get-some-ncbi-genomes
#295 opened Jul 31, 2023 by ctb
raw read processing: /1, /2 not always added/specified properly
#294 opened Jul 12, 2023 by bluegenes
fix documentation site to be better/nicer
#293 opened Jul 8, 2023 by ctb
prioritize genomes found in previous samples when running genome grist
#291 opened Jun 29, 2023 by clb21565
2
Insert a list of accessions into the samples: section of the config.yml file! code documentation Improvements or additions to documentation
#284 opened Jun 10, 2023 by ccbaumler
1
Using --cluster parameter to run jobs documentation Improvements or additions to documentation enhancement New feature or request good first issue Good for newcomers
#283 opened Jun 10, 2023 by ccbaumler
1
Problem with grist output
#278 opened Apr 19, 2023 by marsfro
add check to ignore genome(s) that cannot be up downloaded
#277 opened Apr 16, 2023 by bcpd
4
Problem installing geome-grist & spacegraphcats
#273 opened Mar 22, 2023 by hehouts
2
Problem with rule extract_leftover_reads_wc (DeprecationWarning: Implementing implicit namespace packages)
#268 opened Feb 16, 2023 by jessicalumian
1
maximum number of gather hashes on report graph and finding numbers of hashes that don't match anything
#266 opened Feb 7, 2023 by jessicalumian
2
What should we benchmark?
#263 opened Dec 20, 2022 by ccbaumler
1
use picklists for ignoring identifiers instead of custom coding it in the Snakefile
#262 opened Dec 18, 2022 by ctb
Errors if genome-grist run on Marine metagenomes
#241 opened Nov 27, 2022 by jeanzzhao
25
filesystem latency error
#240 opened Nov 14, 2022 by jeanzzhao
8
print out important snakemake args when invoking genome-grist --help
#239 opened Nov 3, 2022 by clb21565
1
add printout of version information when running genome-grist
#236 opened Oct 20, 2022 by ctb
would it be helpful to add ln to configuration instructions?
#235 opened Oct 19, 2022 by jessicalumian
draft release protocol for genome-grist
#234 opened Sep 30, 2022 by ctb
explore myst-nb for notebooks
#231 opened Sep 28, 2022 by ctb
ProTip! Exclude everything labeled bug with -label:bug.