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fmicompbio
/
monaLisa
binned motif enrichment analysis and visualisation
https://fmicompbio.github.io/monaLisa/
GNU General Public License v3.0
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cluster (enriched) k-mers
#30
mbstadler
closed
4 years ago
2
create artificial dataset
#29
mbstadler
closed
3 years ago
1
not depend on HOMER
#28
mbstadler
closed
3 years ago
4
make getKmerFreq accept a Granges object
#27
machlabd
closed
3 years ago
1
Add plot for stabsel
#26
machlabd
closed
4 years ago
1
Check homer run
#25
machlabd
closed
5 years ago
1
return count matrix from HOMER run
#24
LukasBurger
closed
3 years ago
1
`motifSimilarity` (former `clusterPWMs`) features
#23
mbstadler
opened
5 years ago
2
centralised, consistent definition of HOMER installation
#22
mbstadler
closed
3 years ago
2
Summarized experiment
#21
mbstadler
closed
5 years ago
0
make runHomer check whether output files already exist
#20
LukasBurger
closed
4 years ago
4
make function that takes homer motif file and converts to PWM object
#19
machlabd
closed
5 years ago
1
add PWM logos to heatmap
#18
LukasBurger
closed
5 years ago
2
add citation of Pauls and Darkos paper
#17
LukasBurger
closed
5 years ago
1
add GC content of PWMs column to heatmap and summarised experiment
#16
LukasBurger
closed
5 years ago
1
change naming of PWMs
#15
LukasBurger
closed
5 years ago
2
make comment on problem if regions are of different length
#14
LukasBurger
closed
3 years ago
2
summarized experiment for enrichment/pvalue etc
#13
LukasBurger
closed
5 years ago
3
Lisa on motifs from de novo motif finding?
#12
LukasBurger
opened
5 years ago
1
option to plot enrichment heat map without motifs enriched in central bin
#9
LukasBurger
closed
3 years ago
3
clustering of motifs
#8
LukasBurger
closed
5 years ago
2
legend font size in plotBinScatter
#7
LukasBurger
closed
5 years ago
2
seqLogo function dependency
#6
LukasBurger
closed
5 years ago
1
Stab sel
#5
machlabd
closed
5 years ago
9
maximal sequence length for homer2
#4
mbstadler
closed
5 years ago
1
log-odds score cutoff when dumping PWMs to a file
#2
mbstadler
opened
6 years ago
1
Ideas
#1
LukasBurger
closed
5 years ago
4
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