Skip to content

Issues: wustl-oncology/analysis-wdls

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

25 Open 34 Closed
25 Open 34 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

Add somalier analysis for the RNA samples analyzed as part of immuno pipeline
#164 opened Oct 16, 2024 by malachig
Troubleshoot failures during localization step
#154 opened Sep 3, 2024 by malachig
1
Create a tool that aggregates and prioritizes/filters fusion neoantigens
#151 opened Aug 2, 2024 by malachig
1
Add HLA LOH analysis to immuno workflow
#146 opened Mar 7, 2024 by malachig
Giving pVACseq output files unique names enhancement New feature or request
#140 opened Dec 7, 2023 by evelyn-schmidt
Produce a new variant report table customized to immuno.wdl
#137 opened Oct 27, 2023 by malachig
pvacseq/pvacfuse hangs and fails to complete
#131 opened Sep 12, 2023 by rkageyama
2
Improve selection of variant annotation for the variants.tsv
#124 opened Jun 5, 2023 by malachig
1
Investigate inconsistent variant results from varscan when using localization_optional bug Something isn't working performance optimizations of run time adn/or cost
#109 opened Apr 12, 2023 by malachig
@malachig
2
Finish/Verify conversions from CWL documentation Improvements or additions to documentation
#101 opened Mar 23, 2023 by chrisamiller 100+
Update hla_consensus.wdl to handle ambiguity codes. enhancement New feature or request
#100 opened Mar 22, 2023 by chrisamiller
updates to pvacseq enhancement New feature or request
#87 opened Mar 8, 2023 by malachig
4 tasks done
@susannasiebert
1
Experiment with use of private VMs security related to improving security environment or procedures
#70 opened Oct 26, 2022 by malachig
3
use localization_optional when possible performance optimizations of run time adn/or cost
#64 opened Aug 9, 2022 by chrisamiller
4
Add use of monitoring script to cromwell runs enhancement New feature or request
#63 opened Aug 9, 2022 by malachig
3
optimize mark_duplicates_and_sort performance optimizations of run time adn/or cost
#51 opened Jun 15, 2022 by chrisamiller
1
somatic wgs does not include gnomad filtering enhancement New feature or request
#48 opened May 13, 2022 by chrisamiller
1
Organize outputs into structs where appropriate enhancement New feature or request
#44 opened May 6, 2022 by chrisamiller
2
Explore streaming sequence to Fastq and/or trimFastq steps performance optimizations of run time adn/or cost
#36 opened May 4, 2022 by chrisamiller
2
optimize CPU/RAM requests performance optimizations of run time adn/or cost
#33 opened May 4, 2022 by chrisamiller
2
remove redundant alignments in immuno.wdl performance optimizations of run time adn/or cost
#31 opened May 4, 2022 by chrisamiller
Benchmark different parallelization approaches to mutect enhancement New feature or request
#26 opened Apr 6, 2022 by johnmaruska
Automate process for tagged releases enhancement New feature or request
#25 opened Apr 6, 2022 by johnmaruska
Copy analysis-workflows relevant docstrings/comments documentation Improvements or additions to documentation
#24 opened Apr 6, 2022 by johnmaruska
Consolidate tasks+workflows definitions where reasonable enhancement New feature or request
#23 opened Apr 6, 2022 by johnmaruska
ProTip! Type g p on any issue or pull request to go back to the pull request listing page.