NelleV moanin issues - Githubissues

NelleV / moanin

Timecourse transcriptomic analysis

https://nellev.github.io/moanin/

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Problem with expand_contrast

#99 ldrufuca opened 1 year ago
0
how to create contrasts for a very simple experiment design?

#98 eterlova opened 1 year ago
0
NA/NaN/Inf in foreign function call (arg 1) while creating moaninObject

#97 nemitheasura opened 2 years ago
1
Need to enforce types of `Condition` and `Time` to avoid errors

#96 annaquaglieri16 opened 3 years ago
0
GitHub actions

#95 NelleV closed 3 years ago
0
Eap/return tstat

#94 epurdom closed 3 years ago
0
Error in lfc provided by DE_timepoints

#93 epurdom opened 3 years ago
1
Fix df

#92 epurdom closed 3 years ago
0
Epicon

#91 epurdom closed 3 years ago
0
Is the compute_pvalue for DE_timecourse giving the wrong value for n?

#90 epurdom closed 3 years ago
6
DE_timecourse should get default value for use_voom_weights from the value of log_transform of object

#89 epurdom opened 3 years ago
0
Problem in DE_timecourse fitting null beta if the formula is more complicated

#88 epurdom closed 3 years ago
0
MAINT adding checks to the tests

#87 NelleV closed 3 years ago
0
Eap/fix group ref

#86 epurdom closed 4 years ago
0
Definition of voom weights doesn't use the user defined group/variable

#85 epurdom closed 4 years ago
0
MAINT replacing sapply with vapply when possible

#84 NelleV closed 4 years ago
0
Matrix stats

#83 NelleV closed 4 years ago
0
Matrix stats

#82 NelleV closed 4 years ago
0
Problem in running DE_timepoints if factor levels of group have a `:` or other illegitimate character

#81 epurdom opened 4 years ago
4
FIX minor elements based on timecoursedata's reviews

#80 NelleV closed 4 years ago
0
fix plot_splines_data for centroid plotting

#79 epurdom closed 4 years ago
0
MAINT running tests and documentation on the correct folder…

#78 NelleV closed 4 years ago
0
MAINT running tests and documentation on the correct folder…

#77 NelleV closed 4 years ago
0
MAINT check timecoursedata is installed before re-installing

#76 NelleV closed 4 years ago
0
FIX plot_model_explorer's scores were all 0

#75 NelleV closed 4 years ago
0
MAINT transfering some of the bioconductor feedback from timecourseda…

#74 NelleV closed 4 years ago
0
FIX pipeline now works with NA in cluster means

#73 NelleV closed 4 years ago
0
FIX DE timecourse now works with voom weights

#72 NelleV closed 4 years ago
2
update documentation

#71 epurdom closed 4 years ago
0
Eap/moanin class

#70 epurdom closed 4 years ago
0
Eap/moanin class

#69 epurdom closed 4 years ago
0
Function to scale centroid to the scale of the data

#68 epurdom closed 4 years ago
2
If equal scores, randomize assignment of genes to cluster in `score_and_label_kmeans`

#67 epurdom opened 4 years ago
0
fix error introduced in plot_splines_data

#66 epurdom closed 4 years ago
0
MAINT using new docker container

#65 NelleV closed 4 years ago
0
New moaninClass branch has problems plotting splines with `smooth=TRUE`

#64 epurdom closed 4 years ago
0
Eap/moanin class

#63 epurdom closed 4 years ago
0
Need to deal with log transformation for count data

#62 epurdom closed 4 years ago
0
Error in `kmeans_splines`, getting NAN in the centroids

#61 epurdom closed 4 years ago
2
Needs to depend on R4.0 but Travis CI only has 3.6

#60 epurdom closed 4 years ago
2
Eap/documentation fixes

#59 epurdom closed 4 years ago
0
`find_enriched_go_terms` only works if first call `library(topGO)`

#58 epurdom closed 4 years ago
1
Why do we export `fit_splines`?

#57 epurdom closed 4 years ago
3
Why do we suggest some of these packages?

#56 epurdom closed 4 years ago
1
Using use_voom_weights=TRUE with DE_timecourse gave me an error

#55 epurdom closed 4 years ago
4
Eap/documentation fixes

#54 epurdom closed 4 years ago
0
fix stop commands that use +

#53 epurdom closed 4 years ago
0
Can we delete create_splines_model?

#52 epurdom closed 4 years ago
1
Shouldn't have `set.seed` in function call

#51 epurdom closed 4 years ago
3
Need a biocViews: in DESCRIPTION for bioconductor submission

#50 epurdom closed 4 years ago
0