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hbctraining
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DGE_workshop_salmon
https://hbctraining.github.io/DGE_workshop_salmon/
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Add link to Mike Love's new book
#53
marypiper
opened
4 years ago
0
update likelihood ratio definition
#52
mistrm82
closed
4 years ago
1
WGCNA package link not working
#51
jihe-liu
closed
4 years ago
1
change linked file in FA lesson
#50
mistrm82
closed
4 years ago
1
do we set lfcThreshold in results or lfcShrink or both?
#49
mistrm82
opened
4 years ago
0
update a markdown report link
#48
mistrm82
closed
4 years ago
1
PCA link not working
#47
jihe-liu
opened
4 years ago
0
Fixed typo on line 35
#46
kant
closed
4 years ago
0
Run through functional analysis
#45
mistrm82
closed
4 years ago
2
shorten the overview lesson (01)
#44
mistrm82
closed
4 years ago
0
Reduce GO and add table of databases
#43
rkhetani
opened
4 years ago
0
make this a 1.5 day workshop?
#42
mistrm82
opened
4 years ago
1
coef vs contrast?
#41
mistrm82
opened
4 years ago
2
Include a note about detach() getting an error if dpylr is not attached
#40
marypiper
closed
4 years ago
1
Shorten annotations to not including Annotationdbi
#39
marypiper
closed
4 years ago
2
Add exercises to make workshop more interactive - especially for functional analysis
#38
marypiper
closed
4 years ago
1
Discussion of possibly shortening Annotation session in the workshop
#37
jihe-liu
closed
4 years ago
1
Extract annotations of interest: more explanation
#36
jihe-liu
closed
4 years ago
1
AnnotationHub() note
#35
jihe-liu
closed
4 years ago
1
update FA lesson for SPIA
#34
mistrm82
closed
4 years ago
2
Change to log2FC shrinkage to apeglm following advice in Mike
#33
marypiper
opened
4 years ago
2
Update workflow image with log2FC shrinkage after DE testing
#32
marypiper
opened
4 years ago
1
change the wording of refresher boxplot question
#31
mistrm82
closed
4 years ago
2
reg exp for extracting salmon files
#30
jihe-liu
closed
4 years ago
1
set.seed()
#29
marypiper
closed
4 years ago
0
Syntax issue on line 35
#28
kant
closed
4 years ago
0
add an instance of using save() and load()
#27
rkhetani
closed
4 years ago
2
reduce some text in the Annotation lesson
#26
mistrm82
closed
4 years ago
0
changing to AnnotationHub
#25
mistrm82
closed
4 years ago
2
clusterprofiler arguments
#24
rkhetani
closed
4 years ago
2
An explanation for why the AnnotationDbi has so many more genes
#23
mistrm82
closed
4 years ago
1
Change image of RNA composition to reflect fewer reads in the OE sample (sample A)
#22
marypiper
closed
4 years ago
1
mean-variance plot
#21
marypiper
closed
5 years ago
1
change back to vst from rld?
#20
marypiper
closed
4 years ago
1
Reorder Wald test lesson
#19
marypiper
closed
4 years ago
0
Add figure for independent filtering
#18
marypiper
closed
4 years ago
2
change the scales of mean versus variance plot
#17
mistrm82
closed
4 years ago
1
Add a link in QC lesson to single cell materials
#16
mistrm82
closed
4 years ago
2
Apply to map?
#15
rkhetani
closed
4 years ago
1
Add note about ignoreTxVersion = TRUE
#14
marypiper
closed
4 years ago
1
adjust timings for Wald test and R refresher
#13
marypiper
closed
5 years ago
1
reduce viz lesson
#12
rkhetani
closed
5 years ago
1
Arguments and functions each on own line and comment all code chunks
#11
marypiper
opened
5 years ago
3
Wald test lesson (05_ - Meeta)
#10
marypiper
closed
5 years ago
0
Shorten GO part of functional analysis and some of the code (MP)
#9
marypiper
opened
5 years ago
1
Remove design <- ~ age + treat_sex part of the design formula (MP)
#8
marypiper
closed
5 years ago
1
Dispersion - consolidate some of the descriptions (MP)
#7
marypiper
closed
4 years ago
0
FA - assess what impact changing AnnotationDbi to AnnotationHub
#6
marypiper
closed
4 years ago
2
apply -> map
#5
rkhetani
closed
4 years ago
1
fix small typo
#4
rkhetani
closed
4 years ago
2
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