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GoekeLab
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proActiv
Estimation of Promoter Activity from RNA-Seq data
https://goekelab.github.io/proActiv/
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unable to create promotor annotation for a non-model organism
#53
ShenTTT
closed
2 weeks ago
7
Does getAlternativePromoters function work properly?
#52
Tianle-Li
closed
5 months ago
0
Couldn't find a BSgenome data package that matches genome assembly: oryCun2.0
#51
houruiyan
closed
9 months ago
2
core dumped
#50
houruiyan
closed
9 months ago
1
What is the mean of names(genomeStyles()) ?
#49
houruiyan
closed
9 months ago
2
Error in `[[<-`(`*tmp*`, name, value = new("SimpleIntegerList", elementType = "integer",
#48
mmpust
closed
8 months ago
4
plotPromoters function not available in latest version
#47
notthathime
opened
1 year ago
1
A little question about internal promoter^_^
#46
CuteGold0407
opened
1 year ago
0
Error in EstimateSizeFactorsForMatrix: at least one zero
#45
notthathime
opened
1 year ago
1
calculatePromoterReadCounts were not running
#44
GuangyaoL
opened
1 year ago
1
Identification of cancer-associated promoters
#43
alejandrogzi
opened
1 year ago
0
could not find function "getAlternativePromoters"
#42
wenmm
closed
1 year ago
1
Some question about getAlternativePromoters()
#41
ninjaxfy
closed
2 years ago
2
used for 10x data
#40
houruiyan
closed
2 years ago
2
cannot find extdata/testdata/bam
#39
houruiyan
closed
2 years ago
2
Getting active/inactive and major/minor promoters when no condition is specified
#38
elenichri
opened
2 years ago
1
fix a typo in doc
#37
lu000016
closed
2 years ago
0
some question about the paper
#35
ninjaxfy
closed
2 years ago
1
DEXSeq hangs
#34
elenichri
opened
2 years ago
0
estimating promoter activity from given bam files
#33
ninjaxfy
closed
2 years ago
4
Docker image for proActiv
#32
NaotoKubota
closed
3 years ago
2
Not summarized values across conditions
#31
elenichri
closed
3 years ago
3
invalid class "DESeqDataSet" object error
#30
elenichri
closed
3 years ago
6
map to txId by promoterId
#27
yuukiiwa
closed
3 years ago
1
getAlternativePromoters (Bioconductor version dont have it)
#26
ashokpatowary
closed
2 years ago
1
preparePromoterAnnotation for different species
#25
gabee-chan
closed
3 years ago
5
update installation guide to Bioconductor
#24
jonathangoeke
closed
3 years ago
0
getTranscriptRanges() function limits species this can be applied to
#23
G-Thomson
closed
3 years ago
2
No major promoter when internal promoters are strong
#22
lukauskas
opened
3 years ago
2
Example of how to generate junction file from fastq
#21
lukauskas
opened
3 years ago
1
Updates to trim package size for Bioconductor submission
#20
jleechung
closed
4 years ago
0
proActiv release 0.99.0
#19
jleechung
closed
4 years ago
0
Vignette and READ.ME
#18
jleechung
closed
4 years ago
0
proActiv throws error with xz-compressed Tophat2 junction file
#17
jleechung
opened
4 years ago
0
Include Unit Tests
#16
jleechung
closed
4 years ago
0
Modify Variable Names
#15
jleechung
closed
4 years ago
0
Change variable names
#14
jleechung
closed
4 years ago
0
Reduction of Promoter Annotation Size
#13
jleechung
closed
4 years ago
0
Promoter Annotation Optimization
#12
jleechung
closed
4 years ago
0
create a vignette with an example analysis script
#11
jleechung
closed
4 years ago
1
optimize preparation of promoter annotation object
#10
jleechung
closed
4 years ago
1
update to LICENSE (MIT) and README
#9
jonathangoeke
closed
4 years ago
0
Implement parallelization, BAM usage and wrapper
#8
jleechung
closed
4 years ago
1
updated .gitignore
#7
jonathangoeke
closed
4 years ago
0
create proActiv wrapper to return summarizedExperiment with promoter ranges
#6
jonathangoeke
closed
4 years ago
1
updated README with simplified code
#5
jonathangoeke
closed
4 years ago
0
Included links to additional data
#4
jonathangoeke
closed
4 years ago
0
estimate promoter activity from bam file
#3
jonathangoeke
opened
4 years ago
2
how to prepare promoterAnnotationData?
#2
xflicsu
closed
4 years ago
1
update to documentation
#1
GoekeLab
closed
5 years ago
0
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