Skip to content

Issues: vgteam/long-read-giraffe-experiments

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

20 Open 43 Closed
20 Open 43 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

Attach SV calling to Snakemake?
#64 opened Nov 5, 2024 by adamnovak
@xchang1
Add a target to make the One True List of Files to the Snakemake, along with experiment configs for it
#61 opened Nov 5, 2024 by adamnovak
@xchang1
Evaluate DV calling on HG001 AKA NA12878 using its new assembly-based benchmark
#60 opened Nov 5, 2024 by adamnovak
@adamnovak
Summary Statistics Table
#59 opened Nov 5, 2024 by adamnovak
Investigate low SV calling accuracy on the unfiltered graph
#58 opened Nov 5, 2024 by adamnovak
@jmonlong
Fix very high false negative rate for insertion SVs with LRG
#55 opened Oct 23, 2024 by adamnovak
@xchang1
1
Collect speed results, sim accuracy results, and real calling results for Giraffe all together
#54 opened Sep 13, 2024 by adamnovak
Investigate if graph alignments of nanopore reads that get long softclips at surjection are correct
#51 opened Jul 19, 2024 by adamnovak
2
Fix CHM13 HiFi reads that minimap2 gets right and Giraffe gets wrong
#47 opened Jul 8, 2024 by adamnovak
Improve MAPQs on HiFi reads
#46 opened Jul 3, 2024 by adamnovak
1
Fix HiFi reads that mismap due to increased exploration of chains
#39 opened Jun 27, 2024 by adamnovak
Work out why Banded Global Aligner middles are slow on Illumina reads
#35 opened May 24, 2024 by adamnovak
Work out why the fragment stage is slow on Illumina reads
#34 opened May 24, 2024 by adamnovak
performance of vg inject
#32 opened May 23, 2024 by netwon123
Do variant calling on lr-giraffe Illumina reads and evaluate it
#26 opened May 22, 2024 by adamnovak
Port paired end logic for sr code path
#21 opened May 16, 2024 by benedictpaten
Produce summary performance plots for R10 and Hifi
#19 opened May 16, 2024 by adamnovak
@xchang1
Long read support for vg surject
#13 opened May 6, 2024 by adamnovak
@jeizenga
Debug haplotype sampling with long read Giraffe
#12 opened May 6, 2024 by adamnovak
@jltsiren
2
Long Read Giraffe Release
#6 opened May 6, 2024 by adamnovak
2 tasks done
ProTip! Type g i on any issue or pull request to go back to the issue listing page.