Skip to content

Issues: immunogenomics/harmony

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

66 Open 147 Closed
66 Open 147 Closed
Author
Filter by author
Label
Filter by label
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Milestones
Filter by milestone
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

"Is It Feasible to Use Harmony Directly for Batch Correction in Seurat V5 Instead of “ IntegrateLayers“?"
#249 opened Apr 20, 2024 by Tylesteven
Trying to load pbmc.RData from Zenodo
#248 opened Apr 12, 2024 by davetang
2
Can i obtain my original data shape?
#247 opened Mar 6, 2024 by leeleavitt
Cannot reproduce Seurat.ipynb vignette; parameters not passed
#243 opened Feb 19, 2024 by Nichal123
vars_use Definition Not Explicit
#242 opened Feb 19, 2024 by DarioS
Convergence plot showing bizarre reading, data okay to use?
#241 opened Feb 14, 2024 by jcshuy
2
Plotting Function do_scatter Does Not Exist
#239 opened Feb 2, 2024 by DarioS
1
feature.loadings of harmony is missing in SummarizedExperiment
#238 opened Jan 25, 2024 by xiangpin
Error: matrix multiplication: incompatible matrix dimensions: 100x96490 and 96489x22
#237 opened Jan 17, 2024 by claireanjou
1
Harmony converged after 6 iterations Error in UseMethod(generic = "Key", object = object) : no applicable method for 'Key'... response needed Issue will be closed within a month if no response is provided
#221 opened Nov 19, 2023 by ncedi12
3
RunHarmony on the weights branch errors with incompatible matrix dimensions
#219 opened Nov 9, 2023 by deevdevil88
16
installation issues question Further information is requested response needed Issue will be closed within a month if no response is provided
#217 opened Nov 2, 2023 by vappiah
3
Batch effect seen on Heatmap
#216 opened Oct 27, 2023 by Lucas-Maciel
5
conda install -c bioconda r-harmony failed
#210 opened Oct 8, 2023 by hanguojun007
1
Obtaining batch effect estimates at cluster level question Further information is requested
#199 opened Jul 26, 2023 by wmacnair
1
Integrating pairs of samples separately in a Seurat object question Further information is requested
#196 opened May 19, 2023 by zhang248
Equivalent of Seurat's IntegrateData parameter, features.to.integrate in Runharmony
#193 opened Mar 25, 2023 by akhst7
correct batch effect for data from different organ and integrate multiple studies
#190 opened Mar 17, 2023 by Beki-seq
1
confused about convergence response needed Issue will be closed within a month if no response is provided
#186 opened Jan 13, 2023 by Jessica-alny
1
remove bulk data batch
#183 opened Dec 6, 2022 by yinchaoyi
Error installing Harmony on R version 4.2.2 (2022-11-05) response needed Issue will be closed within a month if no response is provided
#178 opened Nov 4, 2022 by cirslee
7
did not converge in 25 iterations
#177 opened Oct 27, 2022 by ljy-sys
5
RunHarmony - Warning: Invalid name supplied, making object name syntactically valid
#176 opened Oct 26, 2022 by lucygarner
2
ups and downs in the standard deviation
#175 opened Oct 19, 2022 by showteeth
1
Error in dplyr::select(): ! <text>:1:5: unexpected symbol
#173 opened Oct 17, 2022 by lucygarner
4
ProTip! Updated in the last three days: updated:>2024-05-01.