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33 Open 105 Closed
33 Open 105 Closed
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Issues list

[BUG] stuck on dds.deseq2() bug Something isn't working
#338 opened Nov 19, 2024 by Erikado4
8
Use AnnData as a component rather than a superclass of DeseqDataSet enhancement New feature or request
#331 opened Oct 31, 2024 by BorisMuzellec
Save / load DeseqDataSet states and write anndata to disk as h5ad enhancement New feature or request
#330 opened Oct 31, 2024 by BorisMuzellec
Way to pass lognormalized-regress out expression matrices
#322 opened Oct 5, 2024 by Rafael-Silva-Oliveira
Feature Request: RLE Plots
#320 opened Sep 27, 2024 by jonathjd
2
[BUG] DeseqStats lists a parameter 'n_processes' which it does not accept bug Something isn't working
#310 opened Sep 9, 2024 by cmeesters
Add support for sample-/gene-dependent normalization factors (e.g., length offsets from pytximport)
#305 opened Jul 31, 2024 by maltekuehl
3
Random effects
#303 opened Jul 23, 2024 by TheAustinator
[BUG] DeseqDataSet.deseq2() still prints when quiet=True is set bug Something isn't working
#287 opened Jun 9, 2024 by yihming
@umarteauowkin
4
[BUG] Errors saving DeseqDataSet to H5AD bug Something isn't working
#254 opened Mar 14, 2024 by jpintar
dispersion algorithm
#252 opened Mar 14, 2024 by wangjiawen2013
single cell dataset
#248 opened Mar 12, 2024 by wangjiawen2013
1
[BUG] Discrepancies between DESeq2/pyDESeq2 bug Something isn't working
#217 opened Dec 5, 2023 by ledwmp
4
Different results with the same dependencies
#216 opened Dec 1, 2023 by bernheder
4
Add a way to create a DeseqDataSet object from normalized count matrix / preprocessed adata object enhancement New feature or request
#205 opened Nov 19, 2023 by VictorCurean
1
Option to specify control genes for fitting size factors enhancement New feature or request
#204 opened Nov 15, 2023 by mbernste
[BUG] Overflows in irls_solver and shape mismatch in _refit_without_outliers when using continuous variable bug Something isn't working
#201 opened Nov 8, 2023 by ozanozisik
[BUG] Iterative Mode Hangs bug Something isn't working
#198 opened Oct 30, 2023 by koh-joshua
3
[RFC] Adding rpy2 (and R and deseq2) as test-only dependency.ies to have more flexible end2end tests
#190 opened Oct 19, 2023 by jeandut
[BUG] More flexibility with figures bug Something isn't working
#186 opened Oct 17, 2023 by jbschiratti
Refactor utils.py
#182 opened Oct 17, 2023 by khalilouardini
[FEAT] Add an example with "real data"
#179 opened Oct 17, 2023 by jbschiratti
Adding LRT test
#176 opened Oct 4, 2023 by wxicu
2
3
[BUG] Overflow in .deseq2() and and lfc_shrink() bug Something isn't working
#169 opened Aug 24, 2023 by BeyondTheProof
3
[Feature request] one vs. all others enhancement New feature or request
#168 opened Aug 23, 2023 by acoteataltius
8
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