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Issues list

Treatment of NAs enhancement
#16 opened Mar 8, 2013 by amcdavid updated Mar 8, 2013 Version 1.0
1
getLogFC semantics could be improved
#54 opened Feb 26, 2015 by amcdavid updated Feb 26, 2015
Check for NAs in modelMatrix in zlm
#62 opened Apr 8, 2016 by amcdavid updated Apr 8, 2016
Construct a data package for MAST that can be leveraged for unit and regression testing enhancement
#68 opened Dec 7, 2016 by gfinak updated Dec 7, 2016
@gfinak
Refactoring of thresholding code
#69 opened Dec 7, 2016 by amcdavid updated Dec 7, 2016
@gfinak @amcdavid
Almost all genes are differentially expressed
#84 opened Nov 8, 2017 by Jerry001 updated Nov 8, 2017
6
Largest model coefficients for barely expressed genes?
#86 opened Dec 5, 2017 by gabprg updated Dec 5, 2017
4
No significant DE genes after MAST (FDR < 0.05)
#90 opened May 16, 2018 by fbrundu updated May 17, 2018
7
MAST unable to estimate components when including mixed effect
#98 opened Aug 1, 2018 by gabprg updated Aug 8, 2018
9
no H cmponenet after running the "zlm" function
#109 opened Mar 19, 2019 by kristinazuza updated Mar 19, 2019
3
GSEA improvements
#44 opened Oct 18, 2014 by amcdavid updated Apr 6, 2020
@amcdavid
3
Discrepancy between including factors as covariates directly vs hard-coding dummy variables
#144 opened Nov 12, 2020 by jmchan88 updated Nov 19, 2020
5
Unexpected Large Confidence Interval of LogFC
#142 opened Oct 13, 2020 by JiaxinLi-lipluszn updated Nov 19, 2020
2
DE between different groups : post-hoc tests?
#139 opened Jul 10, 2020 by fabien-tell updated Nov 19, 2020
3
Speed up fitting process when including random effect with lme4?
#130 opened Apr 8, 2020 by hoholee updated Nov 19, 2020
5
bootVcov1 gives an error due to differences in the dimension of the bootstraps
#131 opened Apr 22, 2020 by jaquol updated Nov 24, 2020
6
Error: grouping factors must have > 1 sampled level
#146 opened Nov 28, 2020 by esrasefik updated Nov 28, 2020
4
Problems when fitting a linear-mixed model ('glmer') with sc-RNAseq data
#148 opened Dec 4, 2020 by aidarripoll updated Dec 5, 2020
4
Working weights are not updated properly in bayesglm.R
#110 opened Apr 16, 2019 by NikTuzov updated Mar 15, 2021
25
Nested batch effects in MAST
#97 opened Aug 1, 2018 by LuckyMD updated Mar 18, 2021
14
Deviance
#155 opened Apr 15, 2021 by sofiapuvogelvittini updated Apr 19, 2021
2
Applicability of MAST to spatial transcriptomics analyses without single-cell resolution
#166 opened Aug 9, 2021 by jeremycfd updated Aug 9, 2021
gseaAfterBoot enriched genes
#154 opened Apr 13, 2021 by EBosi updated Nov 10, 2021
5
What should I do with the "NaN" values, with extremely small Pr(>Chisq) in the coef column of the summary(zlmCond) result?
#168 opened Nov 30, 2021 by danli349 updated Nov 30, 2021
Support for passing hypothesis to doLRT in summary() as in lrTest()
#171 opened Dec 23, 2021 by ImNotaGit updated Jan 6, 2022
6
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