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pwmenrich
•
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0
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532
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How to interpret difference statistic from the output of the motifDiffEnrichment() function in the PWMEnrich package?
PWMEnrich
4.7 years ago
intregen
• 0
0
votes
0
replies
592
views
makeBackground error message "Sequence only contain N's"
pwmenrich
5.4 years ago
gdeniz
• 0
0
votes
1
reply
633
views
subsetting PWMLognBackground object in the PWMEnrich package
PWMEnrich
5.6 years ago • updated 5.5 years ago
amanda.joy.price
• 0
0
votes
0
replies
577
views
PWMEnruch: Error in getPromoters(organism)
r
pwmenrich
5.7 years ago
prp291
• 0
0
votes
1
reply
1.6k
views
Convert HOMER motif matrix to pfm?
homer
pwmenrich
updated 7.1 years ago by
Ou, Jianhong
★ 1.3k • written 7.1 years ago by
sarah.blackstone7734
• 0
0
votes
0
replies
847
views
question about motif enrichment analysis using PWMenrich
PWMenrich
7.2 years ago
sekawaiwai2006
▴ 20
2
votes
3
replies
1.5k
views
visualing pwm motif on a DNAstring
pwmenrich
dnastringset
updated 7.5 years ago by
Robert Stojnic
▴ 50 • written 7.5 years ago by
sekawaiwai2006
▴ 20
0
votes
0
replies
1.1k
views
Import motifs in .meme format in MotifDB
motfdb
pwmenrich
meme
7.5 years ago
enricoferrero
▴ 660
0
votes
3
replies
1.2k
views
motif scanning using position frequncy matrix of motif in a given set of DNAstringset sequnces?.
motifdb
matchpwm
motif
pwmenrich
pwm
7.9 years ago
vinod.acear
▴ 50
0
votes
1
reply
2.0k
views
non-numeric argument to binary operator error with makeBackground() in PWMEnrich
pwmenrich
MotifDB
updated 7.9 years ago by
Robert Stojnic
▴ 50 • written 7.9 years ago by
elliott77
• 0
2
votes
1
reply
906
views
[PWMEnrich] Enrichment p-values on human sequences
pwmenrich
log
updated 8.1 years ago by
Robert Stojnic
▴ 50 • written 8.1 years ago by
enricoferrero
▴ 660
1
vote
3
replies
1.2k
views
getBackgroundFrequencies for Arabidopsis
pwmenrich
bsgenome
8.1 years ago
oliwindram
▴ 10
0
votes
5
replies
2.2k
views
Motif enrichment analysis: Error in transfac format and background frequencies from BSGenome
BSgenome
convert
BSgenome
PWMEnrich
MotifDb
updated 9.1 years ago by
Robert Stojnic
▴ 80 • written 9.1 years ago by
deepti anand
▴ 50
0
votes
0
replies
680
views
PWMEnrich::sequenceReport() and 'res' global variable
PWMEnrich
PWMEnrich
9.2 years ago
enricoferrero
▴ 660
0
votes
8
replies
1.4k
views
plotpfm has been removed in PWMEnrich?
PWMEnrich
PWMEnrich
updated 9.8 years ago by
Robert Stojnic
▴ 80 • written 9.8 years ago by
Fabrice Tourre
▴ 970
0
votes
1
reply
1.0k
views
PWMEnrich binding site position
PWMEnrich
PWMEnrich
updated 10.1 years ago by
Robert Stojnic
▴ 50 • written 10.1 years ago by
Guest User
★ 12k
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Answer: Is SeqSQC compatible with hg38?
by
James W. MacDonald
63k
I'll answer your question with a question. Is there any reason to believe that things like IBD or PCA or Sex checks would be dependent on t…
Comment: using featureCounts (Subread) to count only spliced reads per gene - behavior of
by
Gregory
• 0
Thanks for the prompt response, Gordon. I'm looking for count at the gene level - the gene id is the meta feature, so one row per gene in …
Comment: DiffBind handling of replicates and consensus
by
Rory Stark
★ 5.0k
You may want to try different values for the `normalize` parameter: dbObj <- dba.normalize(DBA = dbObj, library = "RiP", normalize=DBA…
Comment: DiffBind: dba.plotProfile(profiles)
by
Rory Stark
★ 5.0k
Yes, setting `raster_quality` down is a good way to address this issue. I've taken to using `raster_quality=1` in general as I think the pl…
Comment: DiffBind: dba.plotProfile(profiles)
by
Dorien
▴ 10
Not really an answer as I don't know really know why , but I also had the same issue and may have found a workaround ! If I set maxSites > …
Votes
Comment: biomaRt code/getBM function no longer importing 'coding' sequence via seqType ar
Comment: DiffBind: dba.plotProfile(profiles)
Answer: DiffBind - how to prep the sample matrix when multiple bam files are used by MAC
Comment: DiffBind: dba.plotProfile(profiles)
Normalisation of data using DESeq2 with multi-groups
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