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LieberInstitute
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qsvaR
Quality Surrogate Variable Analysis for Degradation Correction
http://research.libd.org/qsvaR/
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proposed v1.9.1 updates
#45
gpertea
closed
1 month ago
0
[Feature Request] Support ENSEMBL IDs
#44
lcolladotor
opened
10 months ago
2
Switch to using rlang and cli
#43
lcolladotor
opened
11 months ago
0
Guide for evaluating confounding of DE results with RNA degradation
#42
lcolladotor
opened
11 months ago
0
Interactive tool for assessing confounding of DE results with RNA degradation
#41
lcolladotor
opened
11 months ago
0
Video guides for qsvaR
#40
lcolladotor
opened
11 months ago
0
Translate course and intro documentation to Spanish
#39
lcolladotor
opened
11 months ago
0
Design a 2 day workshop / short course
#38
lcolladotor
opened
11 months ago
0
Guide for using helper functions to select transcripts associated with degradation in new subsets or new datasets
#37
lcolladotor
opened
11 months ago
0
Helper functions for reproducing statistical modeling results that can be applied to subsets of the available data or new degradation datasets
#36
lcolladotor
opened
11 months ago
0
Guide for downstream analyses
#35
lcolladotor
opened
11 months ago
0
Expand functionality for downstream analyses
#34
lcolladotor
opened
11 months ago
0
Enhance flexibility of transcript selection
#33
lcolladotor
opened
11 months ago
0
Provide access to all statistical model results
#32
lcolladotor
opened
11 months ago
0
Add a guide highlighting differences vs the qSVA 2017 method published in PNAS
#31
lcolladotor
opened
11 months ago
0
qsvaR workflow overview image
#30
lcolladotor
opened
11 months ago
0
[BUG] Complete qSVA() wrapper
#29
lcolladotor
closed
1 year ago
2
[BUG] Document when users need to specify set.seed() to ensure reproducibility of their results
#28
lcolladotor
closed
1 year ago
0
Figure 5
#27
joshstolz
closed
2 years ago
0
Figure 4
#26
joshstolz
closed
2 years ago
0
Figure 3
#25
joshstolz
closed
2 years ago
0
Figure 2
#24
joshstolz
closed
2 years ago
0
Figure 1.
#23
joshstolz
closed
2 years ago
0
K_qsvs coverage
#22
joshstolz
closed
2 years ago
3
Complete select_transcripts()
#21
lcolladotor
closed
2 years ago
3
Add unit tests
#20
lcolladotor
closed
2 years ago
0
Document concepts and link to external resources for more detail
#19
lcolladotor
closed
2 years ago
0
make wrapper function
#18
joshstolz
closed
2 years ago
0
Code Chunk comments
#17
joshstolz
closed
2 years ago
1
Add DEqual plots to package
#16
joshstolz
closed
2 years ago
0
Update Variable names to be user friendly
#15
joshstolz
closed
2 years ago
1
Document how to use Salmon and SPEAQeasy output in the vignette
#14
lcolladotor
closed
2 years ago
1
Package data
#13
joshstolz
closed
2 years ago
5
get_qsvs todos
#12
lcolladotor
closed
2 years ago
1
k_qsvs todos
#11
lcolladotor
closed
2 years ago
1
getBonfTx todos
#10
lcolladotor
closed
2 years ago
2
getDegTx todos
#9
lcolladotor
closed
2 years ago
2
Update citation
#8
lcolladotor
closed
2 years ago
1
Update README files
#7
lcolladotor
closed
2 years ago
2
Update NAMESPACE
#6
lcolladotor
closed
2 years ago
1
Update NEWS.md
#5
lcolladotor
closed
2 years ago
0
Consider adding a GHA workflow
#4
lcolladotor
closed
2 years ago
1
Check testthat edition
#3
lcolladotor
closed
2 years ago
1
Check name with others
#2
lcolladotor
closed
2 years ago
3
Update DESCRIPTION
#1
lcolladotor
closed
2 years ago
2