Skip to content

Pull requests: broadinstitute/long-read-pipelines

New pull request New
25 Open 322 Closed
25 Open 322 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
Reviews
Filter by reviews
No reviews Review required Approved review Changes requested
Assignee
Filter by who’s assigned
Assigned to nobody Loading
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Pull requests list

Improvement: Add WDL Workflow for Automated IGV Screenshots with Customizable Resources and Inputs
#472 opened Sep 18, 2024 by shadizaheri Collaborator • Draft
Add WDL script for normalizing VCF files by removing HAPCOMP and HAPDOM fields"
#470 opened Sep 15, 2024 by shadizaheri Collaborator • Draft
Add initial IGV_HaplotypeViz WDL workflow for generating IGV screenshots
#468 opened Sep 5, 2024 by shadizaheri Collaborator • Draft
to split vcf
#465 opened Aug 11, 2024 by shadizaheri Collaborator • Draft
Adding a WDL to run DORADO for basecalling ONT data
#462 opened Jul 31, 2024 by jamesemery Loading…
Add Coverage Statistics Calculation Script for Mosdepth
#460 opened Jul 26, 2024 by bshifaw Contributor Loading…
5
Increase Maximum Cycle Value for Base Recalibrator
#459 opened Jul 26, 2024 by shadizaheri Collaborator • Draft
Add BarcodeExtractor workflow to extract the barcodes from each inut_bam
#458 opened Jul 24, 2024 by shadizaheri Collaborator • Draft
Sz dyst peaker
#457 opened Jul 24, 2024 by shadizaheri Collaborator Loading…
mosdepth cov stat
#454 opened May 20, 2024 by bshifaw Contributor Loading…
3
Sz liftover based pmicp main
#452 opened May 5, 2024 by shadizaheri Collaborator • Draft
Merging development branch from Malaria project - decontamination, pipelines for organisms with no variant truth set, etc.
#451 opened Apr 24, 2024 by brosula Collaborator Loading…
Sz add mem disk aligned metrics
#448 opened Apr 23, 2024 by shadizaheri Collaborator Loading…
2
Auto-Save Index Files Alongside BAMs
#446 opened Apr 11, 2024 by shadizaheri Collaborator Loading…
Refine Contamination Analysis Workflow for Extra Input Resources
#443 opened Feb 29, 2024 by shadizaheri Collaborator Loading…
Follow up to PR #418
#430 opened Oct 13, 2023 by SHuang-Broad Collaborator Loading…
@SHuang-Broad
9
a little cleanup
#422 opened Sep 6, 2023 by tedsharpe Contributor Loading…
@tedsharpe
16
a docker image to be used for creating Terra cloud environment
#421 opened Aug 30, 2023 by SHuang-Broad Collaborator Loading…
@SHuang-Broad
5
Automated WDL Testing
#420 opened Aug 24, 2023 by bshifaw Contributor Loading…
@bshifaw
1
Pipeline for ingesting high-coverage PB/ONT aligned BAMs and format them for re-processing
#418 opened Aug 18, 2023 by SHuang-Broad Collaborator Loading…
@SHuang-Broad
62
Hangsu phasing
#417 opened Aug 16, 2023 by hangsuUNC Collaborator • Draft
Add TRGT Special-purpose caller
#412 opened Jul 20, 2023 by mdanzi Loading…
@mdanzi
10
Adding Script to Generate a Summary of Docker Images Used by Workflows
#410 opened May 19, 2023 by bshifaw Contributor Loading…
@bshifaw
16
update Dockerfile and Makefile for Canu version update. add parameter in Canu.wdl.
#376 opened Nov 23, 2022 by eviewan Contributor • Draft
@kvg
7
add optional input parameter length_threshold for paftools.js call
#374 opened Nov 9, 2022 by eviewan Contributor • Draft
@kvg
1
ProTip! Find all pull requests that aren't related to any open issues with -linked:issue.