Skip to content

Issues: lmweber/diffcyt

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

33 Open 25 Closed
33 Open 25 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

diffcyt after CATALYST returned NA in diffcyt-DS-LMM even when clusters have "sufficient" number of cells across at least half of samples
#64 opened Mar 4, 2025 by denvercal1234GitHub
1
An update to edgeR
#63 opened Feb 10, 2025 by SamGG
2
ds analysis with multiple conditions
#60 opened Feb 1, 2025 by feanaros
1
T cell Subpopulation Percentage Showing as Zero in Differential Analysis Despite Presence in Clustering Results
#59 opened Aug 10, 2024 by TongzhenXu
Insights into data transformation
#58 opened Jul 31, 2024 by Thapeachydude
2
Please add the option to use clustering in colData
#56 opened Dec 19, 2023 by david-priest
2
Fixed the calcCounts and calcMedians Functions and Added Option to Choose Which Clustering Is Used
#55 opened Nov 3, 2023 by LukaTandaric
1
How does diffcyt calculate logFC?
#54 opened Oct 24, 2023 by LukaTandaric
Possible bugfix for LMM fit outputting NAs for all comparisons
#53 opened Sep 25, 2023 by lmweber
2
diffCyt and edgeR return different results
#51 opened Jul 21, 2023 by LazDaria
Diffcyt for two different columns
#49 opened Jun 19, 2023 by shanh1
1
Sorting x-axis in Heatmap
#48 opened May 25, 2023 by Almr95
Association with subject-level continuous phenotypes
#46 opened Dec 13, 2022 by hruffieux
Create design & contrast matrix for differential state analysis
#45 opened Sep 19, 2022 by Stein-ErikG
diffcyt differential expression model with patient_id as random effect only returns NA p values
#43 opened Jul 26, 2022 by singlecellfan
design & constrast matrix
#41 opened May 27, 2022 by cr2106
4
Error in SummarizedExperiment: the rownames and colnames of the supplied assay(s) must be NULL or identical to those of the SummarizedExperiment object (or derivative) to construct
#39 opened May 23, 2022 by igordot
DA for multiple treatments
#37 opened Feb 9, 2022 by MayaCyTOFnewbie
3
NA's after DA-GLMM
#32 opened Jun 11, 2021 by yghosheh
1
low p values when using testDA_GLMM().. lme4 too sensitive to weights?
#31 opened Mar 9, 2021 by florian-bach
createContrast output for comparing multiple levels
#30 opened Feb 1, 2021 by MartijnVNL
Input for createContrast()
#29 opened Jan 18, 2021 by JudithBernett
2
#N/A in expression markers values
#28 opened Jan 4, 2021 by algebio
1
diffcyt for longitudinal data
#27 opened Dec 25, 2020 by antoine4ucsd
3
Issue running DA analysis
#26 opened Nov 17, 2020 by carl-coyle
1
ProTip! no:milestone will show everything without a milestone.