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PWMEnrich
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800
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How to interpret difference statistic from the output of the motifDiffEnrichment() function in the PWMEnrich package?
PWMEnrich
6.2 years ago
intregen
• 0
0
votes
0
replies
930
views
makeBackground error message "Sequence only contain N's"
pwmenrich
6.9 years ago
gdeniz
• 0
0
votes
1
reply
1.0k
views
subsetting PWMLognBackground object in the PWMEnrich package
PWMEnrich
7.1 years ago • updated 7.0 years ago
amanda.joy.price
▴ 10
0
votes
0
replies
844
views
PWMEnruch: Error in getPromoters(organism)
r
pwmenrich
7.2 years ago
prp291
• 0
0
votes
1
reply
2.2k
views
Convert HOMER motif matrix to pfm?
homer
pwmenrich
updated 8.6 years ago by
Ou, Jianhong
★ 1.3k • written 8.6 years ago by
sarah.blackstone7734
• 0
0
votes
0
replies
1.2k
views
question about motif enrichment analysis using PWMenrich
PWMenrich
8.7 years ago
sekawaiwai2006
▴ 20
2
votes
3
replies
2.1k
views
visualing pwm motif on a DNAstring
pwmenrich
dnastringset
updated 9.0 years ago by
Robert Stojnic
▴ 50 • written 9.0 years ago by
sekawaiwai2006
▴ 20
0
votes
0
replies
1.5k
views
Import motifs in .meme format in MotifDB
motfdb
pwmenrich
meme
9.0 years ago
enricoferrero
▴ 680
0
votes
3
replies
1.7k
views
motif scanning using position frequncy matrix of motif in a given set of DNAstringset sequnces?.
motifdb
matchpwm
motif
pwmenrich
pwm
9.4 years ago
vinod.acear
▴ 50
0
votes
1
reply
2.5k
views
non-numeric argument to binary operator error with makeBackground() in PWMEnrich
pwmenrich
MotifDB
updated 9.4 years ago by
Robert Stojnic
▴ 50 • written 9.4 years ago by
elliott77
• 0
2
votes
1
reply
1.3k
views
[PWMEnrich] Enrichment p-values on human sequences
pwmenrich
log
updated 9.6 years ago by
Robert Stojnic
▴ 50 • written 9.6 years ago by
enricoferrero
▴ 680
1
vote
3
replies
1.7k
views
getBackgroundFrequencies for Arabidopsis
pwmenrich
bsgenome
9.6 years ago
oliwindram
▴ 10
0
votes
5
replies
2.9k
views
Motif enrichment analysis: Error in transfac format and background frequencies from BSGenome
BSgenome
convert
BSgenome
PWMEnrich
MotifDb
updated 10.6 years ago by
Robert Stojnic
▴ 80 • written 10.6 years ago by
deepti anand
▴ 50
0
votes
0
replies
924
views
PWMEnrich::sequenceReport() and 'res' global variable
PWMEnrich
PWMEnrich
10.7 years ago
enricoferrero
▴ 680
0
votes
8
replies
1.9k
views
plotpfm has been removed in PWMEnrich?
PWMEnrich
PWMEnrich
updated 11.3 years ago by
Robert Stojnic
▴ 80 • written 11.3 years ago by
Fabrice Tourre
▴ 970
0
votes
1
reply
1.4k
views
PWMEnrich binding site position
PWMEnrich
PWMEnrich
updated 11.6 years ago by
Robert Stojnic
▴ 50 • written 11.6 years ago by
Guest User
★ 13k
16 results • Page
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Comment: Design Matrix with paired and independent samples plus RUVg Spike-in normalizati
by
Mei
• 0
I have a similar experiment with 7 paired samples (T0 and T1) in each of 4 outcome groups. I am using RUVr combined with limma-voom, so I a…
Comment: Help with the code for "BiocNeighbors::generic_find_knn() function used by scran
by
Arctic
• 0
Many thanks for the link to the C++ code. I will see if I can find someone with C++ experience to help me with the code breakdown from her…
Answer: Help with the code for "BiocNeighbors::generic_find_knn() function used by scran
by
Aaron Lun
★ 28k
It's calling C++ code, see the relevant function definitions on [GitHub](https://github.com/knncolle/BiocNeighbors/blob/master/src/generics…
Answer: DESeq2
by
ATpoint
★ 4.8k
Time courses are often inevitable batches but you should have done the library prep at the same day, just extract RNA per day. If not then …
Comment: Package developing and interoperation with Bioconductor
by
slizchap
• 0
Thank you so much for your answer. This was very useful, I will optimize my functions so they can handle SE objects.
Votes
Comment: plyranges: find exact GRanges match keeping metadata columns
Answer: Help with the code for "BiocNeighbors::generic_find_knn() function used by scran
Is it possible to speed up VariantAnnotation's rowRanges function when converting to a dataframe?
Answer: Is it possible to speed up VariantAnnotation's rowRanges function when convertin
Comment: ComBat with repeated measures
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